├── .github └── workflows │ └── build_site.yml ├── .gitignore ├── LICENSE ├── README.md ├── docs ├── applications.md ├── css │ └── custom.css ├── index.md ├── kb_usage │ ├── kb_count.md │ ├── kb_ref.md │ └── kb_usage.md └── tutorials │ ├── download_data │ └── data_download.ipynb │ ├── kb_aggregate │ └── python │ │ └── kb_aggregating_count_matrices.ipynb │ ├── kb_building_atlas │ ├── R │ │ └── kb_analysis_0_R.ipynb │ └── python │ │ └── kb_analysis_0_python.ipynb │ ├── kb_custom_index │ └── python │ │ └── kb_transcriptome_index.ipynb │ ├── kb_getting_started │ ├── R │ │ └── kb_intro_2_R.ipynb │ └── python │ │ └── kb_intro_2_python.ipynb │ ├── kb_kite │ └── python │ │ └── kb_kite.ipynb │ ├── kb_multiple_fastqs │ └── python │ │ └── kb_multiple_files.ipynb │ ├── kb_nucleus │ └── python │ │ └── kb_single_nucleus.ipynb │ ├── kb_pseudotime │ └── R │ │ ├── monocle2 │ │ └── kb_monocle2.ipynb │ │ └── slingshot │ │ └── kb_slingshot.ipynb │ ├── kb_quality_control │ ├── R │ │ └── kb_intro_1_R.ipynb │ └── python │ │ └── kb_intro_1_python.ipynb │ ├── kb_species_mixing │ ├── R │ │ └── kb_mixed_species_10x_v2.ipynb │ └── python │ │ └── kb_species_mixing.ipynb │ ├── kb_velocity │ └── python │ │ └── kb_velocity.ipynb │ ├── kb_velocity_index │ └── python │ │ └── kb_velocity_index.ipynb │ └── scRNA-seq_intro │ └── python │ └── scRNA-seq_intro.ipynb └── mkdocs.yml /.github/workflows/build_site.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/pachterlab/kallistobustools/HEAD/.github/workflows/build_site.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- 1 | .DS_Store 2 | .ipynb_checkpoints 3 | -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- 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