LICENSE
MANIFEST.in
README.md
reqs.txt
requirements.txt
setup.py
test_counts.txt
test_meta.txt
cellsnake/__init__.py
cellsnake/cellsnake_functions.py
cellsnake/command_line.py
cellsnake.egg-info/PKG-INFO
cellsnake.egg-info/SOURCES.txt
cellsnake.egg-info/dependency_links.txt
cellsnake.egg-info/entry_points.txt
cellsnake.egg-info/not-zip-safe
cellsnake.egg-info/requires.txt
cellsnake.egg-info/top_level.txt
cellsnake/scrna/config.yaml
cellsnake/scrna/install_r_packages.sh
cellsnake/scrna/workflow/Snakefile
cellsnake/scrna/workflow/bundle/c2.cgp.v2022.1.Hs.symbols.gmt
cellsnake/scrna/workflow/mg2sc/src/collapse_taxonomy.py
cellsnake/scrna/workflow/mg2sc/src/k2sc.py
cellsnake/scrna/workflow/mg2sc/src/scMeG-kraken.py
cellsnake/scrna/workflow/mg2sc/src/.ipynb_checkpoints/k2sc-checkpoint.py
cellsnake/scrna/workflow/rules/extra_functions.smk
cellsnake/scrna/workflow/rules/integration.smk
cellsnake/scrna/workflow/rules/microbiome.smk
cellsnake/scrna/workflow/rules/params_detect.smk
cellsnake/scrna/workflow/rules/params_write.smk
cellsnake/scrna/workflow/rules/seurat.smk
cellsnake/scrna/workflow/rules/test.smk
cellsnake/scrna/workflow/scripts/scrna-cellchat.R
cellsnake/scrna/workflow/scripts/scrna-cellchat_plots.R
cellsnake/scrna/workflow/scripts/scrna-celltypist.R
cellsnake/scrna/workflow/scripts/scrna-celltypist.py
cellsnake/scrna/workflow/scripts/scrna-clusteringtree.R
cellsnake/scrna/workflow/scripts/scrna-combine-microbiome-rds.R
cellsnake/scrna/workflow/scripts/scrna-convert-to-h5ad.R
cellsnake/scrna/workflow/scripts/scrna-dimplot.R
cellsnake/scrna/workflow/scripts/scrna-dotplot.R
cellsnake/scrna/workflow/scripts/scrna-find-markers.R
cellsnake/scrna/workflow/scripts/scrna-functions.R
cellsnake/scrna/workflow/scripts/scrna-go_analysis.R
cellsnake/scrna/workflow/scripts/scrna-gsea.R
cellsnake/scrna/workflow/scripts/scrna-harmony.R
cellsnake/scrna/workflow/scripts/scrna-install-packages.R
cellsnake/scrna/workflow/scripts/scrna-kegg.R
cellsnake/scrna/workflow/scripts/scrna-kraken2-collapse.py
cellsnake/scrna/workflow/scripts/scrna-kraken2-data-parser.R
cellsnake/scrna/workflow/scripts/scrna-marker-plots.R
cellsnake/scrna/workflow/scripts/scrna-metrics.R
cellsnake/scrna/workflow/scripts/scrna-microbiome-dimplot.R
cellsnake/scrna/workflow/scripts/scrna-microbiome-sigplot.R
cellsnake/scrna/workflow/scripts/scrna-monocle3.R
cellsnake/scrna/workflow/scripts/scrna-music-decon.R
cellsnake/scrna/workflow/scripts/scrna-normalization-pca.R
cellsnake/scrna/workflow/scripts/scrna-read-qc.R
cellsnake/scrna/workflow/scripts/scrna-selected-marker-plots.R
cellsnake/scrna/workflow/scripts/scrna-seurat-integration.R
cellsnake/scrna/workflow/scripts/scrna-singler-plots.R
cellsnake/scrna/workflow/scripts/scrna-subset_final_rds.R
cellsnake/scrna/workflow/scripts/scrna-technicals.R
cellsnake/scrna/workflow/scripts/scrna-top-marker-plot.R