LICENSE
MANIFEST.in
README.md
pyproject.toml
r_requirements.txt
requirements.txt
setup.py
GS_PRACTICE.egg-info/PKG-INFO
GS_PRACTICE.egg-info/SOURCES.txt
GS_PRACTICE.egg-info/dependency_links.txt
GS_PRACTICE.egg-info/entry_points.txt
GS_PRACTICE.egg-info/top_level.txt
documentation/Pipeline_overview.pdf
documentation/Pipeline_overview.png
src/gspractice/__init__.py
src/gspractice/gspractice.py
src/gspractice/makeclfs.py
src/gspractice/run.py
src/gspractice/run_gspractice.py
src/gspractice/data/KNN.joblib
src/gspractice/data/LRC.joblib
src/gspractice/data/RFC.joblib
src/gspractice/data/SVC.joblib
src/gspractice/data/TCGA_7181_cluster_annotations.tsv
src/gspractice/data/TCGA_7181_cluster_colors.tsv
src/gspractice/data/TCGA_7181_cluster_numbers.tsv
src/gspractice/data/TCGA_7181_df_mutsig_log10.tsv
src/gspractice/data/TCGA_7181_knn_n5_dis.joblib
src/gspractice/data/TCGA_7181_lrc_c1.joblib
src/gspractice/data/TCGA_7181_rfc_ne100.joblib
src/gspractice/data/TCGA_7181_svc_c1_g01.joblib
src/gspractice/data/UMAP_projector.joblib
src/gspractice/data/cosmic_v2_signatures.tsv
tests/test_path_to_cancer_samples_10.list
tests/test_run.sh
tests/input/TCGA_mutect2_random100_1.maf
tests/input/cancer_sample01.vcf
tests/input/cancer_sample02.vcf
tests/input/cancer_sample03.vcf
tests/input/cancer_sample04.vcf
tests/input/cancer_sample05.vcf
tests/input/cancer_sample06.vcf
tests/input/cancer_sample07.vcf
tests/input/cancer_sample08.vcf
tests/input/cancer_sample09.vcf
tests/input/cancer_sample10.vcf
tests/input/sample_names_10.list
tests/output/TCGA_mutect2_random100_1_decomposed.tsv
tests/output/TCGA_mutect2_random100_1_prediction.tsv
tests/output/TCGA_mutect2_random100_1_umap.png
tests/output/cancer_sample01_decomposed.tsv
tests/output/cancer_sample01_prediction.tsv
tests/output/cancer_sample01_umap.png
tests/output/cancer_samples_10_decomposed.tsv
tests/output/cancer_samples_10_prediction.tsv
tests/output/cancer_samples_10_umap.png