├── DESCRIPTION ├── LICENSE ├── NAMESPACE ├── NEWS.md ├── R ├── IGHcounts.R ├── data_preprocessing.R ├── exp_prob.R ├── human_definitions.R ├── human_nmf.R ├── merge_repertoire.R ├── mouse_definitions.R ├── mouse_nmf.R ├── prepare_sciCSR.R └── transitions.R ├── README.md ├── _pkgdown.yml ├── data ├── human_definitions.rda ├── human_nmf.rda ├── mouse_definitions.rda └── mouse_nmf.rda ├── docs ├── 404.html ├── LICENSE-text.html ├── articles │ ├── comparison.html │ ├── comparison_files │ │ └── figure-html │ │ │ ├── unnamed-chunk-10-1.png │ │ │ ├── unnamed-chunk-11-1.png │ │ │ ├── unnamed-chunk-12-1.png │ │ │ ├── unnamed-chunk-13-1.png │ │ │ ├── unnamed-chunk-16-1.png │ │ │ ├── unnamed-chunk-2-1.png │ │ │ └── unnamed-chunk-5-1.png │ ├── csr.html │ ├── csr_files │ │ └── figure-html │ │ │ ├── unnamed-chunk-11-1.png │ │ │ ├── unnamed-chunk-17-1.png │ │ │ ├── unnamed-chunk-18-1.png │ │ │ ├── unnamed-chunk-19-1.png │ │ │ ├── unnamed-chunk-20-1.png │ │ │ ├── unnamed-chunk-21-1.png │ │ │ ├── unnamed-chunk-21-2.png │ │ │ └── unnamed-chunk-5-1.png │ ├── images │ │ └── sample_msm.png │ └── index.html ├── authors.html ├── deps │ ├── bootstrap-5.2.2 │ │ ├── bootstrap.bundle.min.js │ │ ├── bootstrap.bundle.min.js.map │ │ ├── bootstrap.min.css │ │ ├── font.css │ │ └── fonts │ │ │ ├── 1Ptxg8zYS_SKggPN4iEgvnHyvveLxVs9pbCIPrc.woff │ │ │ ├── 1Ptxg8zYS_SKggPN4iEgvnHyvveLxVvaorCIPrc.woff │ │ │ ├── 4iCs6KVjbNBYlgo6ew.woff │ │ │ ├── 4iCs6KVjbNBYlgoKfw7w.woff │ │ │ ├── 4iCv6KVjbNBYlgoCxCvTtA.woff │ │ │ ├── 4iCv6KVjbNBYlgoCxCvjsGyL.woff │ │ │ ├── 6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7nsDQ.woff │ │ │ ├── 6xK1dSBYKcSV-LCoeQqfX1RYOo3qPa7j.woff │ │ │ ├── 6xK3dSBYKcSV-LCoeQqfX1RYOo3aPA.woff │ │ │ ├── 6xK3dSBYKcSV-LCoeQqfX1RYOo3qOK7j.woff │ │ │ ├── 6xKydSBYKcSV-LCoeQqfX1RYOo3i54rAkw.woff │ │ │ ├── 6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vAkw.woff │ │ │ ├── 6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwlxdo.woff │ │ │ ├── 6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zAkw.woff │ │ │ ├── 6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwlxdo.woff │ │ │ ├── CSR54z1Qlv-GDxkbKVQ_dFsvWNRevw.woff │ │ │ ├── CSR54z1Qlv-GDxkbKVQ_dFsvaNA.woff │ │ │ ├── CSR64z1Qlv-GDxkbKVQ_TOQ.woff │ │ │ ├── CSR64z1Qlv-GDxkbKVQ_fOAKSw.woff │ │ │ ├── JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCtZ6Ew9.woff │ │ │ ├── JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCtr6Ew9.woff │ │ │ ├── JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCuM70w9.woff │ │ │ ├── KFOlCnqEu92Fr1MmEU9fBBc-.woff │ │ │ ├── KFOlCnqEu92Fr1MmEU9vAA.woff │ │ │ ├── KFOlCnqEu92Fr1MmSU5fBBc-.woff │ │ │ ├── KFOlCnqEu92Fr1MmSU5vAA.woff │ │ │ ├── KFOlCnqEu92Fr1MmWUlfBBc-.woff │ │ │ ├── KFOlCnqEu92Fr1MmWUlvAA.woff │ │ │ ├── KFOmCnqEu92Fr1Me5g.woff │ │ │ ├── KFOmCnqEu92Fr1Mu4mxM.woff │ │ │ ├── QGYpz_kZZAGCONcK2A4bGOj8mNhL.woff │ │ │ ├── S6u8w4BMUTPHjxsAXC-s.woff │ │ │ ├── S6u8w4BMUTPHjxswWA.woff │ │ │ ├── S6u9w4BMUTPHh6UVSwiPHw.woff │ │ │ ├── S6u9w4BMUTPHh6UVeww.woff │ │ │ ├── S6u9w4BMUTPHh7USSwiPHw.woff │ │ │ ├── S6u9w4BMUTPHh7USeww.woff │ │ │ ├── S6uyw4BMUTPHjx4wWA.woff │ │ │ ├── S6uyw4BMUTPHvxo.woff │ │ │ ├── UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuFuYMZs.woff │ │ │ ├── UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuI6fMZs.woff │ │ │ ├── UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuLyfMZs.woff │ │ │ ├── XRXI3I6Li01BKofiOc5wtlZ2di8HDFwmRTA.woff │ │ │ ├── XRXI3I6Li01BKofiOc5wtlZ2di8HDGUmRTA.woff │ │ │ ├── XRXI3I6Li01BKofiOc5wtlZ2di8HDLshRTA.woff │ │ │ ├── memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkWVAexg.woff │ │ │ ├── memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkaVQ.woff │ │ │ ├── memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkWVAexg.woff │ │ │ ├── memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkaVQ.woff │ │ │ ├── memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjWVAexg.woff │ │ │ ├── memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjaVQ.woff │ │ │ ├── memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1x4gaVQ.woff │ │ │ ├── memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1y4k.woff │ │ │ ├── memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0B4gaVQ.woff │ │ │ ├── memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0C4k.woff │ │ │ ├── memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0B4gaVQ.woff │ │ │ ├── memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0C4k.woff │ │ │ ├── pe03MImSLYBIv1o4X1M8cc9iB_5p.woff │ │ │ ├── pe0qMImSLYBIv1o4X1M8cfe5.woff │ │ │ └── q5uGsou0JOdh94bfvQlr.woff │ ├── data-deps.txt │ └── jquery-3.6.0 │ │ ├── jquery-3.6.0.js │ │ ├── jquery-3.6.0.min.js │ │ └── jquery-3.6.0.min.map ├── index.html ├── link.svg ├── news │ └── index.html ├── pkgdown.js ├── pkgdown.yml ├── reference │ ├── AddCellMetaToVDJ.html │ ├── annotatePairing.html │ ├── collapseBCR.html │ ├── collapseIntoMetagenes.html │ ├── combineBCR.html │ ├── combineLoomFiles.html │ ├── compareTransitionMatrices.html │ ├── convertSeuratToH5ad.html │ ├── figures │ │ └── sciCSR_logo.png │ ├── fitTPT.html │ ├── fitTransitionModel.html │ ├── getCSRpotential.html │ ├── getIGHmapping.html │ ├── getIGHreadType.html │ ├── getJunctionReads.html │ ├── getSHM.html │ ├── guessBarcodes.html │ ├── human_definitions.html │ ├── human_nmf.html │ ├── index.html │ ├── mergeVelocytoWithGEX.html │ ├── mouse_definitions.html │ ├── mouse_nmf.html │ ├── normalise_dimreduce.html │ ├── plotFluxMatrix.html │ ├── plotStationaryDistribution.html │ ├── plot_arrows.html │ ├── prepare_sciCSR.html │ ├── read_loom_matrices.html │ ├── repairBarcode.html │ ├── run_scVelo.html │ ├── scanBam.html │ ├── splitAnnData.html │ └── summariseIGHreads.html ├── search.json └── sitemap.xml ├── index.md ├── inst ├── .DS_Store ├── CITATION ├── extdata │ ├── Hong_S1_sampled_Igh.bam │ ├── Hong_S1_sampled_Igh.bam.bai │ ├── Hong_S2_sampled_Igh.bam │ ├── Hong_S2_sampled_Igh.bam.bai │ ├── Hong_S3_sampled_Igh.bam │ ├── Hong_S3_sampled_Igh.bam.bai │ ├── Hong_S4_sampled_Igh.bam │ ├── Hong_S4_sampled_Igh.bam.bai │ ├── Hong_S5_sampled_Igh.bam │ ├── Hong_S5_sampled_Igh.bam.bai │ ├── King_Tonsils_BCP4.rds │ ├── hong_sampled.rds │ ├── hong_sampled_cellranger_vdj.csv │ ├── hong_sampled_merged.rds │ └── hong_sampled_vquest_airr.tsv └── python │ ├── TPT_functions.py │ ├── cellrank_functions.py │ ├── plot_velocity.py │ └── run_scvelo.py ├── man ├── AddCellMetaToVDJ.Rd ├── annotatePairing.Rd ├── collapseBCR.Rd ├── collapseIntoMetagenes.Rd ├── combineBCR.Rd ├── combineLoomFiles.Rd ├── compareTransitionMatrices.Rd ├── convertSeuratToH5ad.Rd ├── figures │ └── sciCSR_logo.png ├── fitTPT.Rd ├── fitTransitionModel.Rd ├── getCSRpotential.Rd ├── getIGHmapping.Rd ├── getIGHreadType.Rd ├── getIsotype.Rd ├── getJunctionReads.Rd ├── getSHM.Rd ├── guessBarcodes.Rd ├── human_definitions.Rd ├── human_nmf.Rd ├── mergeIgHCountsToSeurat.Rd ├── mergeVelocytoWithGEX.Rd ├── mouse_definitions.Rd ├── mouse_nmf.Rd ├── normalise_dimreduce.Rd ├── plotFluxMatrix.Rd ├── plotStationaryDistribution.Rd ├── plot_arrows.Rd ├── prepare_sciCSR.Rd ├── read_loom_matrices.Rd ├── repairBarcode.Rd ├── run_scVelo.Rd ├── scanBam.Rd ├── splitAnnData.Rd └── summariseIGHreads.Rd ├── sciCSR.Rproj ├── tests ├── testthat.R └── testthat │ ├── test-AddCellMetaToVDJ.R │ ├── test-collapseBCR.R │ ├── test-combineBCR.R │ ├── test-getCSRpotential.R │ ├── test-getSHM.R │ ├── test-guessBarcodes.R │ ├── test-igh_count.R │ ├── test-repairBarcode.R │ └── test-transitions.R └── vignettes ├── comparison.Rmd ├── csr.Rmd └── images └── sample_msm.png /DESCRIPTION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/DESCRIPTION -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/LICENSE -------------------------------------------------------------------------------- /NAMESPACE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/NAMESPACE -------------------------------------------------------------------------------- /NEWS.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/NEWS.md -------------------------------------------------------------------------------- /R/IGHcounts.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/IGHcounts.R -------------------------------------------------------------------------------- /R/data_preprocessing.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/data_preprocessing.R -------------------------------------------------------------------------------- /R/exp_prob.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/exp_prob.R -------------------------------------------------------------------------------- /R/human_definitions.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/human_definitions.R -------------------------------------------------------------------------------- /R/human_nmf.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/human_nmf.R -------------------------------------------------------------------------------- /R/merge_repertoire.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/merge_repertoire.R -------------------------------------------------------------------------------- /R/mouse_definitions.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/mouse_definitions.R -------------------------------------------------------------------------------- /R/mouse_nmf.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/mouse_nmf.R -------------------------------------------------------------------------------- /R/prepare_sciCSR.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/prepare_sciCSR.R -------------------------------------------------------------------------------- /R/transitions.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/R/transitions.R -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/README.md -------------------------------------------------------------------------------- /_pkgdown.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/_pkgdown.yml -------------------------------------------------------------------------------- /data/human_definitions.rda: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/data/human_definitions.rda -------------------------------------------------------------------------------- /data/human_nmf.rda: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/data/human_nmf.rda -------------------------------------------------------------------------------- /data/mouse_definitions.rda: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/data/mouse_definitions.rda -------------------------------------------------------------------------------- /data/mouse_nmf.rda: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/data/mouse_nmf.rda -------------------------------------------------------------------------------- /docs/404.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/404.html -------------------------------------------------------------------------------- /docs/LICENSE-text.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/LICENSE-text.html -------------------------------------------------------------------------------- /docs/articles/comparison.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison.html -------------------------------------------------------------------------------- /docs/articles/comparison_files/figure-html/unnamed-chunk-10-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison_files/figure-html/unnamed-chunk-10-1.png -------------------------------------------------------------------------------- /docs/articles/comparison_files/figure-html/unnamed-chunk-11-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison_files/figure-html/unnamed-chunk-11-1.png -------------------------------------------------------------------------------- /docs/articles/comparison_files/figure-html/unnamed-chunk-12-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison_files/figure-html/unnamed-chunk-12-1.png -------------------------------------------------------------------------------- /docs/articles/comparison_files/figure-html/unnamed-chunk-13-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison_files/figure-html/unnamed-chunk-13-1.png -------------------------------------------------------------------------------- /docs/articles/comparison_files/figure-html/unnamed-chunk-16-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison_files/figure-html/unnamed-chunk-16-1.png -------------------------------------------------------------------------------- /docs/articles/comparison_files/figure-html/unnamed-chunk-2-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison_files/figure-html/unnamed-chunk-2-1.png -------------------------------------------------------------------------------- /docs/articles/comparison_files/figure-html/unnamed-chunk-5-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/comparison_files/figure-html/unnamed-chunk-5-1.png -------------------------------------------------------------------------------- /docs/articles/csr.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr.html -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-11-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-11-1.png -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-17-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-17-1.png -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-18-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-18-1.png -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-19-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-19-1.png -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-20-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-20-1.png -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-21-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-21-1.png -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-21-2.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-21-2.png -------------------------------------------------------------------------------- /docs/articles/csr_files/figure-html/unnamed-chunk-5-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/csr_files/figure-html/unnamed-chunk-5-1.png -------------------------------------------------------------------------------- /docs/articles/images/sample_msm.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/images/sample_msm.png -------------------------------------------------------------------------------- /docs/articles/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/articles/index.html -------------------------------------------------------------------------------- /docs/authors.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/authors.html -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js.map: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js.map -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/bootstrap.min.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/bootstrap.min.css -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/font.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/font.css -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/1Ptxg8zYS_SKggPN4iEgvnHyvveLxVs9pbCIPrc.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/1Ptxg8zYS_SKggPN4iEgvnHyvveLxVs9pbCIPrc.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/1Ptxg8zYS_SKggPN4iEgvnHyvveLxVvaorCIPrc.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/1Ptxg8zYS_SKggPN4iEgvnHyvveLxVvaorCIPrc.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/4iCs6KVjbNBYlgo6ew.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/4iCs6KVjbNBYlgo6ew.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/4iCs6KVjbNBYlgoKfw7w.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/4iCs6KVjbNBYlgoKfw7w.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/4iCv6KVjbNBYlgoCxCvTtA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/4iCv6KVjbNBYlgoCxCvTtA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/4iCv6KVjbNBYlgoCxCvjsGyL.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/4iCv6KVjbNBYlgoCxCvjsGyL.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7nsDQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7nsDQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPa7j.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPa7j.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3aPA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3aPA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qOK7j.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qOK7j.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rAkw.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rAkw.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vAkw.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vAkw.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwlxdo.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwlxdo.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zAkw.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zAkw.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwlxdo.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwlxdo.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvWNRevw.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvWNRevw.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvaNA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvaNA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/CSR64z1Qlv-GDxkbKVQ_TOQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/CSR64z1Qlv-GDxkbKVQ_TOQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/CSR64z1Qlv-GDxkbKVQ_fOAKSw.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/CSR64z1Qlv-GDxkbKVQ_fOAKSw.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCtZ6Ew9.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCtZ6Ew9.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCtr6Ew9.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCtr6Ew9.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCuM70w9.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/JTUHjIg1_i6t8kCHKm4532VJOt5-QNFgpCuM70w9.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmEU9fBBc-.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmEU9fBBc-.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmEU9vAA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmEU9vAA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmSU5fBBc-.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmSU5fBBc-.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmSU5vAA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmSU5vAA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmWUlfBBc-.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmWUlfBBc-.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmWUlvAA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOlCnqEu92Fr1MmWUlvAA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOmCnqEu92Fr1Me5g.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOmCnqEu92Fr1Me5g.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/KFOmCnqEu92Fr1Mu4mxM.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/KFOmCnqEu92Fr1Mu4mxM.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/QGYpz_kZZAGCONcK2A4bGOj8mNhL.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/QGYpz_kZZAGCONcK2A4bGOj8mNhL.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6u8w4BMUTPHjxsAXC-s.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6u8w4BMUTPHjxsAXC-s.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6u8w4BMUTPHjxswWA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6u8w4BMUTPHjxswWA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh6UVSwiPHw.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh6UVSwiPHw.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh6UVeww.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh6UVeww.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh7USSwiPHw.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh7USSwiPHw.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh7USeww.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6u9w4BMUTPHh7USeww.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6uyw4BMUTPHjx4wWA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6uyw4BMUTPHjx4wWA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/S6uyw4BMUTPHvxo.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/S6uyw4BMUTPHvxo.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuFuYMZs.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuFuYMZs.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuI6fMZs.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuI6fMZs.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuLyfMZs.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuLyfMZs.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/XRXI3I6Li01BKofiOc5wtlZ2di8HDFwmRTA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/XRXI3I6Li01BKofiOc5wtlZ2di8HDFwmRTA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/XRXI3I6Li01BKofiOc5wtlZ2di8HDGUmRTA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/XRXI3I6Li01BKofiOc5wtlZ2di8HDGUmRTA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/XRXI3I6Li01BKofiOc5wtlZ2di8HDLshRTA.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/XRXI3I6Li01BKofiOc5wtlZ2di8HDLshRTA.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkWVAexg.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkWVAexg.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkaVQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkaVQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkWVAexg.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkWVAexg.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkaVQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkaVQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjWVAexg.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjWVAexg.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjaVQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjaVQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1x4gaVQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1x4gaVQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1y4k.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1y4k.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0B4gaVQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0B4gaVQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0C4k.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0C4k.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0B4gaVQ.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0B4gaVQ.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0C4k.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0C4k.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/pe03MImSLYBIv1o4X1M8cc9iB_5p.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/pe03MImSLYBIv1o4X1M8cc9iB_5p.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/pe0qMImSLYBIv1o4X1M8cfe5.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/pe0qMImSLYBIv1o4X1M8cfe5.woff -------------------------------------------------------------------------------- /docs/deps/bootstrap-5.2.2/fonts/q5uGsou0JOdh94bfvQlr.woff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/bootstrap-5.2.2/fonts/q5uGsou0JOdh94bfvQlr.woff -------------------------------------------------------------------------------- /docs/deps/data-deps.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/data-deps.txt -------------------------------------------------------------------------------- /docs/deps/jquery-3.6.0/jquery-3.6.0.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/jquery-3.6.0/jquery-3.6.0.js -------------------------------------------------------------------------------- /docs/deps/jquery-3.6.0/jquery-3.6.0.min.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/jquery-3.6.0/jquery-3.6.0.min.js -------------------------------------------------------------------------------- /docs/deps/jquery-3.6.0/jquery-3.6.0.min.map: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/deps/jquery-3.6.0/jquery-3.6.0.min.map -------------------------------------------------------------------------------- /docs/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/index.html -------------------------------------------------------------------------------- /docs/link.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/link.svg -------------------------------------------------------------------------------- /docs/news/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/news/index.html -------------------------------------------------------------------------------- /docs/pkgdown.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/pkgdown.js -------------------------------------------------------------------------------- /docs/pkgdown.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/pkgdown.yml -------------------------------------------------------------------------------- /docs/reference/AddCellMetaToVDJ.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/AddCellMetaToVDJ.html -------------------------------------------------------------------------------- /docs/reference/annotatePairing.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/annotatePairing.html -------------------------------------------------------------------------------- /docs/reference/collapseBCR.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/collapseBCR.html -------------------------------------------------------------------------------- /docs/reference/collapseIntoMetagenes.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/collapseIntoMetagenes.html -------------------------------------------------------------------------------- /docs/reference/combineBCR.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/combineBCR.html -------------------------------------------------------------------------------- /docs/reference/combineLoomFiles.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/combineLoomFiles.html -------------------------------------------------------------------------------- /docs/reference/compareTransitionMatrices.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/compareTransitionMatrices.html -------------------------------------------------------------------------------- /docs/reference/convertSeuratToH5ad.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/convertSeuratToH5ad.html -------------------------------------------------------------------------------- /docs/reference/figures/sciCSR_logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/figures/sciCSR_logo.png -------------------------------------------------------------------------------- /docs/reference/fitTPT.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/fitTPT.html -------------------------------------------------------------------------------- /docs/reference/fitTransitionModel.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/fitTransitionModel.html -------------------------------------------------------------------------------- /docs/reference/getCSRpotential.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/getCSRpotential.html -------------------------------------------------------------------------------- /docs/reference/getIGHmapping.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/getIGHmapping.html -------------------------------------------------------------------------------- /docs/reference/getIGHreadType.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/getIGHreadType.html -------------------------------------------------------------------------------- /docs/reference/getJunctionReads.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/getJunctionReads.html -------------------------------------------------------------------------------- /docs/reference/getSHM.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/getSHM.html -------------------------------------------------------------------------------- /docs/reference/guessBarcodes.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/guessBarcodes.html -------------------------------------------------------------------------------- /docs/reference/human_definitions.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/human_definitions.html -------------------------------------------------------------------------------- /docs/reference/human_nmf.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/human_nmf.html -------------------------------------------------------------------------------- /docs/reference/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/index.html -------------------------------------------------------------------------------- /docs/reference/mergeVelocytoWithGEX.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/mergeVelocytoWithGEX.html -------------------------------------------------------------------------------- /docs/reference/mouse_definitions.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/mouse_definitions.html -------------------------------------------------------------------------------- /docs/reference/mouse_nmf.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/mouse_nmf.html -------------------------------------------------------------------------------- /docs/reference/normalise_dimreduce.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/normalise_dimreduce.html -------------------------------------------------------------------------------- /docs/reference/plotFluxMatrix.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/plotFluxMatrix.html -------------------------------------------------------------------------------- /docs/reference/plotStationaryDistribution.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/plotStationaryDistribution.html -------------------------------------------------------------------------------- /docs/reference/plot_arrows.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/plot_arrows.html -------------------------------------------------------------------------------- /docs/reference/prepare_sciCSR.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/prepare_sciCSR.html -------------------------------------------------------------------------------- /docs/reference/read_loom_matrices.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/read_loom_matrices.html -------------------------------------------------------------------------------- /docs/reference/repairBarcode.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/repairBarcode.html -------------------------------------------------------------------------------- /docs/reference/run_scVelo.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/run_scVelo.html -------------------------------------------------------------------------------- /docs/reference/scanBam.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/scanBam.html -------------------------------------------------------------------------------- /docs/reference/splitAnnData.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/splitAnnData.html -------------------------------------------------------------------------------- /docs/reference/summariseIGHreads.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/reference/summariseIGHreads.html -------------------------------------------------------------------------------- /docs/search.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/search.json -------------------------------------------------------------------------------- /docs/sitemap.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/docs/sitemap.xml -------------------------------------------------------------------------------- /index.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/index.md -------------------------------------------------------------------------------- /inst/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/.DS_Store -------------------------------------------------------------------------------- /inst/CITATION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/CITATION -------------------------------------------------------------------------------- /inst/extdata/Hong_S1_sampled_Igh.bam: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S1_sampled_Igh.bam -------------------------------------------------------------------------------- /inst/extdata/Hong_S1_sampled_Igh.bam.bai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S1_sampled_Igh.bam.bai -------------------------------------------------------------------------------- /inst/extdata/Hong_S2_sampled_Igh.bam: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S2_sampled_Igh.bam -------------------------------------------------------------------------------- /inst/extdata/Hong_S2_sampled_Igh.bam.bai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S2_sampled_Igh.bam.bai -------------------------------------------------------------------------------- /inst/extdata/Hong_S3_sampled_Igh.bam: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S3_sampled_Igh.bam -------------------------------------------------------------------------------- /inst/extdata/Hong_S3_sampled_Igh.bam.bai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S3_sampled_Igh.bam.bai -------------------------------------------------------------------------------- /inst/extdata/Hong_S4_sampled_Igh.bam: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S4_sampled_Igh.bam -------------------------------------------------------------------------------- /inst/extdata/Hong_S4_sampled_Igh.bam.bai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S4_sampled_Igh.bam.bai -------------------------------------------------------------------------------- /inst/extdata/Hong_S5_sampled_Igh.bam: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S5_sampled_Igh.bam -------------------------------------------------------------------------------- /inst/extdata/Hong_S5_sampled_Igh.bam.bai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/Hong_S5_sampled_Igh.bam.bai -------------------------------------------------------------------------------- /inst/extdata/King_Tonsils_BCP4.rds: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/King_Tonsils_BCP4.rds -------------------------------------------------------------------------------- /inst/extdata/hong_sampled.rds: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/hong_sampled.rds -------------------------------------------------------------------------------- /inst/extdata/hong_sampled_cellranger_vdj.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/hong_sampled_cellranger_vdj.csv -------------------------------------------------------------------------------- /inst/extdata/hong_sampled_merged.rds: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/hong_sampled_merged.rds -------------------------------------------------------------------------------- /inst/extdata/hong_sampled_vquest_airr.tsv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/extdata/hong_sampled_vquest_airr.tsv -------------------------------------------------------------------------------- /inst/python/TPT_functions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/python/TPT_functions.py -------------------------------------------------------------------------------- /inst/python/cellrank_functions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/python/cellrank_functions.py -------------------------------------------------------------------------------- /inst/python/plot_velocity.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/python/plot_velocity.py -------------------------------------------------------------------------------- /inst/python/run_scvelo.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/inst/python/run_scvelo.py -------------------------------------------------------------------------------- /man/AddCellMetaToVDJ.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/AddCellMetaToVDJ.Rd -------------------------------------------------------------------------------- /man/annotatePairing.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/annotatePairing.Rd -------------------------------------------------------------------------------- /man/collapseBCR.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/collapseBCR.Rd -------------------------------------------------------------------------------- /man/collapseIntoMetagenes.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/collapseIntoMetagenes.Rd -------------------------------------------------------------------------------- /man/combineBCR.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/combineBCR.Rd -------------------------------------------------------------------------------- /man/combineLoomFiles.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/combineLoomFiles.Rd -------------------------------------------------------------------------------- /man/compareTransitionMatrices.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/compareTransitionMatrices.Rd -------------------------------------------------------------------------------- /man/convertSeuratToH5ad.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/convertSeuratToH5ad.Rd -------------------------------------------------------------------------------- /man/figures/sciCSR_logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/figures/sciCSR_logo.png -------------------------------------------------------------------------------- /man/fitTPT.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/fitTPT.Rd -------------------------------------------------------------------------------- /man/fitTransitionModel.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/fitTransitionModel.Rd -------------------------------------------------------------------------------- /man/getCSRpotential.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/getCSRpotential.Rd -------------------------------------------------------------------------------- /man/getIGHmapping.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/getIGHmapping.Rd -------------------------------------------------------------------------------- /man/getIGHreadType.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/getIGHreadType.Rd -------------------------------------------------------------------------------- /man/getIsotype.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/getIsotype.Rd -------------------------------------------------------------------------------- /man/getJunctionReads.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/getJunctionReads.Rd -------------------------------------------------------------------------------- /man/getSHM.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/getSHM.Rd -------------------------------------------------------------------------------- /man/guessBarcodes.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/guessBarcodes.Rd -------------------------------------------------------------------------------- /man/human_definitions.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/human_definitions.Rd -------------------------------------------------------------------------------- /man/human_nmf.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/human_nmf.Rd -------------------------------------------------------------------------------- /man/mergeIgHCountsToSeurat.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/mergeIgHCountsToSeurat.Rd -------------------------------------------------------------------------------- /man/mergeVelocytoWithGEX.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/mergeVelocytoWithGEX.Rd -------------------------------------------------------------------------------- /man/mouse_definitions.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/mouse_definitions.Rd -------------------------------------------------------------------------------- /man/mouse_nmf.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/mouse_nmf.Rd -------------------------------------------------------------------------------- /man/normalise_dimreduce.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/normalise_dimreduce.Rd -------------------------------------------------------------------------------- /man/plotFluxMatrix.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/plotFluxMatrix.Rd -------------------------------------------------------------------------------- /man/plotStationaryDistribution.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/plotStationaryDistribution.Rd -------------------------------------------------------------------------------- /man/plot_arrows.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/plot_arrows.Rd -------------------------------------------------------------------------------- /man/prepare_sciCSR.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/prepare_sciCSR.Rd -------------------------------------------------------------------------------- /man/read_loom_matrices.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/read_loom_matrices.Rd -------------------------------------------------------------------------------- /man/repairBarcode.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/repairBarcode.Rd -------------------------------------------------------------------------------- /man/run_scVelo.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/run_scVelo.Rd -------------------------------------------------------------------------------- /man/scanBam.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/scanBam.Rd -------------------------------------------------------------------------------- /man/splitAnnData.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/splitAnnData.Rd -------------------------------------------------------------------------------- /man/summariseIGHreads.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/man/summariseIGHreads.Rd -------------------------------------------------------------------------------- /sciCSR.Rproj: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/sciCSR.Rproj -------------------------------------------------------------------------------- /tests/testthat.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat.R -------------------------------------------------------------------------------- /tests/testthat/test-AddCellMetaToVDJ.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-AddCellMetaToVDJ.R -------------------------------------------------------------------------------- /tests/testthat/test-collapseBCR.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-collapseBCR.R -------------------------------------------------------------------------------- /tests/testthat/test-combineBCR.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-combineBCR.R -------------------------------------------------------------------------------- /tests/testthat/test-getCSRpotential.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-getCSRpotential.R -------------------------------------------------------------------------------- /tests/testthat/test-getSHM.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-getSHM.R -------------------------------------------------------------------------------- /tests/testthat/test-guessBarcodes.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-guessBarcodes.R -------------------------------------------------------------------------------- /tests/testthat/test-igh_count.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-igh_count.R -------------------------------------------------------------------------------- /tests/testthat/test-repairBarcode.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-repairBarcode.R -------------------------------------------------------------------------------- /tests/testthat/test-transitions.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/tests/testthat/test-transitions.R -------------------------------------------------------------------------------- /vignettes/comparison.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/vignettes/comparison.Rmd -------------------------------------------------------------------------------- /vignettes/csr.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/vignettes/csr.Rmd -------------------------------------------------------------------------------- /vignettes/images/sample_msm.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Fraternalilab/sciCSR/HEAD/vignettes/images/sample_msm.png --------------------------------------------------------------------------------