├── README.md ├── datasets ├── HIV_Perturb-seq │ ├── .gitattributes │ ├── BARCODE_H13Ld2EGFP.txt │ ├── BRD4_targets.txt │ ├── JKLAT_H13Ld2EGFP.combined.rds │ └── hiv_perturbseq.Rmd ├── Pancreatic_differentiation_scRNA-seq │ ├── .gitattributes │ ├── 10clones_seurat.rds │ └── pancreatic_scrnaseq.Rmd └── README.md └── demo ├── demo1 ├── TP53_eff.png ├── barcode_rec.txt ├── ps_demo.R └── singles_dox_mki67_v3.RDS └── demo2 ├── PS_demo2.Rmd ├── PS_demo2.nb.html └── counts ├── GSM7108136_BeeSTINGseq_GDO-A_barcodes.tsv.gz ├── GSM7108136_BeeSTINGseq_GDO-A_features.tsv.gz └── GSM7108136_BeeSTINGseq_GDO-A_matrix.mtx.gz /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/README.md -------------------------------------------------------------------------------- /datasets/HIV_Perturb-seq/.gitattributes: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/HIV_Perturb-seq/.gitattributes -------------------------------------------------------------------------------- /datasets/HIV_Perturb-seq/BARCODE_H13Ld2EGFP.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/HIV_Perturb-seq/BARCODE_H13Ld2EGFP.txt -------------------------------------------------------------------------------- /datasets/HIV_Perturb-seq/BRD4_targets.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/HIV_Perturb-seq/BRD4_targets.txt -------------------------------------------------------------------------------- /datasets/HIV_Perturb-seq/JKLAT_H13Ld2EGFP.combined.rds: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/HIV_Perturb-seq/JKLAT_H13Ld2EGFP.combined.rds -------------------------------------------------------------------------------- /datasets/HIV_Perturb-seq/hiv_perturbseq.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/HIV_Perturb-seq/hiv_perturbseq.Rmd -------------------------------------------------------------------------------- /datasets/Pancreatic_differentiation_scRNA-seq/.gitattributes: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/Pancreatic_differentiation_scRNA-seq/.gitattributes -------------------------------------------------------------------------------- /datasets/Pancreatic_differentiation_scRNA-seq/10clones_seurat.rds: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/Pancreatic_differentiation_scRNA-seq/10clones_seurat.rds -------------------------------------------------------------------------------- /datasets/Pancreatic_differentiation_scRNA-seq/pancreatic_scrnaseq.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/Pancreatic_differentiation_scRNA-seq/pancreatic_scrnaseq.Rmd -------------------------------------------------------------------------------- /datasets/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/datasets/README.md -------------------------------------------------------------------------------- /demo/demo1/TP53_eff.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo1/TP53_eff.png -------------------------------------------------------------------------------- /demo/demo1/barcode_rec.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo1/barcode_rec.txt -------------------------------------------------------------------------------- /demo/demo1/ps_demo.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo1/ps_demo.R -------------------------------------------------------------------------------- /demo/demo1/singles_dox_mki67_v3.RDS: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo1/singles_dox_mki67_v3.RDS -------------------------------------------------------------------------------- /demo/demo2/PS_demo2.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo2/PS_demo2.Rmd -------------------------------------------------------------------------------- /demo/demo2/PS_demo2.nb.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo2/PS_demo2.nb.html -------------------------------------------------------------------------------- /demo/demo2/counts/GSM7108136_BeeSTINGseq_GDO-A_barcodes.tsv.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo2/counts/GSM7108136_BeeSTINGseq_GDO-A_barcodes.tsv.gz -------------------------------------------------------------------------------- /demo/demo2/counts/GSM7108136_BeeSTINGseq_GDO-A_features.tsv.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo2/counts/GSM7108136_BeeSTINGseq_GDO-A_features.tsv.gz -------------------------------------------------------------------------------- /demo/demo2/counts/GSM7108136_BeeSTINGseq_GDO-A_matrix.mtx.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/davidliwei/PS/HEAD/demo/demo2/counts/GSM7108136_BeeSTINGseq_GDO-A_matrix.mtx.gz --------------------------------------------------------------------------------