.bumpversion.cfg
LICENSE
README.md
environment.yml
requirements.txt
setup.py
.circleci/config.yml
.github/workflows/ci.yml
.github/workflows/codecov.yml
.github/workflows/fba.yml
.github/workflows/pypi.yml
docs/Makefile
docs/conf.py
docs/index.rst
docs/installation.rst
docs/make.bat
docs/requirements.txt
docs/tutorial.rst
docs/user_guide.rst
docs/misc/requirements_CITE-seq-Count.txt.bz2
docs/misc/requirements_fba.txt.bz2
docs/misc/run_PRJNA393315.sh
docs/misc/run_SC3_v3_NextGem_DI_PBMC_CSP_1K.sh
docs/misc/run_Targeted_NGSC3_DI_HodgkinsLymphoma_GeneSignature.sh
docs/tutorials/bulk/SC3_v3_NextGem_DI_CRISPR_10K/tutorial.rst
docs/tutorials/cell_hashing/PRJNA423077/Pyplot_embedding_cells_demultiplexed.png
docs/tutorials/cell_hashing/PRJNA423077/Pyplot_heatmap_cells_demultiplexed.png
docs/tutorials/cell_hashing/PRJNA423077/Pyplot_read1_barcodes_starting_ending.png
docs/tutorials/cell_hashing/PRJNA423077/Pyplot_read1_per_base_seq_content.png
docs/tutorials/cell_hashing/PRJNA423077/Pyplot_read2_barcodes_starting_ending.png
docs/tutorials/cell_hashing/PRJNA423077/Pyplot_read2_per_base_seq_content.png
docs/tutorials/cell_hashing/PRJNA423077/tutorial.rst
docs/tutorials/cell_surface_protein_labeling/PRJNA393315/Pyplot_read1_per_base_seq_content.png
docs/tutorials/cell_surface_protein_labeling/PRJNA393315/Pyplot_read2_barcodes_starting_ending.png
docs/tutorials/cell_surface_protein_labeling/PRJNA393315/Pyplot_read2_per_base_seq_content.png
docs/tutorials/cell_surface_protein_labeling/PRJNA393315/tutorial.rst
docs/tutorials/cell_surface_protein_labeling/SC3_v3_NextGem_DI_PBMC_CSP_1K/Pyplot_read1_per_base_seq_content.png
docs/tutorials/cell_surface_protein_labeling/SC3_v3_NextGem_DI_PBMC_CSP_1K/Pyplot_read2_barcodes_starting_ending.png
docs/tutorials/cell_surface_protein_labeling/SC3_v3_NextGem_DI_PBMC_CSP_1K/Pyplot_read2_per_base_seq_content.png
docs/tutorials/cell_surface_protein_labeling/SC3_v3_NextGem_DI_PBMC_CSP_1K/tutorial.rst
docs/tutorials/crispr_screening/SC3_v3_NextGem_DI_CRISPR_10K/Pyplot_embedding_cells_demultiplexed.png
docs/tutorials/crispr_screening/SC3_v3_NextGem_DI_CRISPR_10K/Pyplot_heatmap_cells_demultiplexed.png
docs/tutorials/crispr_screening/SC3_v3_NextGem_DI_CRISPR_10K/Pyplot_read1_per_base_seq_content.png
docs/tutorials/crispr_screening/SC3_v3_NextGem_DI_CRISPR_10K/Pyplot_read2_barcodes_starting_ending.png
docs/tutorials/crispr_screening/SC3_v3_NextGem_DI_CRISPR_10K/Pyplot_read2_per_base_seq_content.png
docs/tutorials/crispr_screening/SC3_v3_NextGem_DI_CRISPR_10K/tutorial.rst
docs/tutorials/targeted_transcript_enrichment/Targeted_NGSC3_DI_HodgkinsLymphoma_GeneSignature/tutorial.rst
fba/__init__.py
fba/__main__.py
fba/count.py
fba/demultiplex.py
fba/filter.py
fba/kallisto.py
fba/levenshtein.py
fba/map.py
fba/parsers.py
fba/qc.py
fba/regex.py
fba/utils.py
fba.egg-info/PKG-INFO
fba.egg-info/SOURCES.txt
fba.egg-info/dependency_links.txt
fba.egg-info/entry_points.txt
fba.egg-info/requires.txt
fba.egg-info/top_level.txt
tests/test_levenshtein.py
tests/map/cell_barcodes.tsv.gz
tests/map/features.tsv.bz2
tests/map/read_R1.fq.gz
tests/map/read_R2.fq.gz
tests/qc-extract-count-demultiplex/cell_barcodes.tsv.gz
tests/qc-extract-count-demultiplex/feature_barcodes.tsv.bz2
tests/qc-extract-count-demultiplex/matrix_featurecount.csv.gz
tests/qc-extract-count-demultiplex/read_R1.fq.gz
tests/qc-extract-count-demultiplex/read_R2.fq.gz