Commit 9279f5b
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279 files changed
+366
-353
lines changed- src/qc/calculate_qc_metrics
- target
- docker
- cluster/leiden
- compression/tar_extract
- convert
- from_10xh5_to_h5mu
- from_10xmtx_to_h5mu
- from_bd_to_10x_molecular_barcode_tags
- from_bdrhap_to_h5mu
- from_cellranger_multi_to_h5mu
- from_h5ad_to_h5mu
- from_h5mu_to_h5ad
- velocyto_to_h5mu
- correction/cellbender_remove_background
- dataflow
- concat
- merge
- split_modalities
- demux
- bcl2fastq
- bcl_convert
- cellranger_mkfastq
- dimred
- pca
- umap
- download
- download_file
- sync_test_resources
- files/make_params
- filter
- do_filter
- filter_with_counts
- filter_with_hvg
- filter_with_scrublet
- remove_modality
- subset_h5mu
- integrate
- harmonypy
- scanorama
- scarches
- scvi
- interactive
- run_cellxgene
- run_cirrocumulus
- mapping
- bd_rhapsody
- cellranger_count_split
- cellranger_count
- cellranger_multi
- htseq_count_to_h5mu
- htseq_count
- multi_star_to_h5mu
- multi_star
- samtools_sort
- star_align_v273a
- star_align
- star_build_reference
- metadata
- add_id
- join_csv
- join_uns_to_obs
- neighbors
- bbknn
- find_neighbors
- process_10xh5/filter_10xh5
- qc
- calculate_qc_metrics
- fastqc
- multiqc
- reference
- build_bdrhap_reference
- build_cellranger_reference
- make_reference
- report/mermaid
- transfer/publish
- transform
- clr
- delete_layer
- log1p
- normalize_total
- regress_out
- scale
- velocity
- scvelo
- velocyto
- native
- compression/tar_extract
- dataflow
- concat
- merge
- split_modalities
- download/sync_test_resources
- integrate/scarches
- metadata/add_id
- transform/scale
- velocity
- scvelo
- velocyto
- nextflow
- cluster/leiden
- convert
- from_10xh5_to_h5mu
- from_10xmtx_to_h5mu
- from_bd_to_10x_molecular_barcode_tags
- from_bdrhap_to_h5mu
- from_cellranger_multi_to_h5mu
- from_h5ad_to_h5mu
- from_h5mu_to_h5ad
- velocyto_to_h5mu
- correction/cellbender_remove_background
- dataflow
- concat
- merge
- split_modalities
- demux
- bcl2fastq
- bcl_convert
- cellranger_mkfastq
- dimred
- pca
- umap
- download
- download_file
- sync_test_resources
- files/make_params
- filter
- do_filter
- filter_with_counts
- filter_with_hvg
- filter_with_scrublet
- remove_modality
- subset_h5mu
- integrate
- harmonypy
- scanorama
- scarches
- scvi
- mapping
- bd_rhapsody
- cellranger_count_split
- cellranger_count
- cellranger_multi
- htseq_count_to_h5mu
- htseq_count
- multi_star_to_h5mu
- multi_star
- samtools_sort
- star_align_v273a
- star_align
- star_build_reference
- metadata
- add_id
- join_csv
- join_uns_to_obs
- neighbors
- bbknn
- find_neighbors
- process_10xh5/filter_10xh5
- qc
- calculate_qc_metrics
- fastqc
- multiqc
- reference
- build_bdrhap_reference
- build_cellranger_reference
- make_reference
- report/mermaid
- transfer/publish
- transform
- clr
- delete_layer
- log1p
- normalize_total
- regress_out
- scale
- velocity
- scvelo
- velocyto
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+366
-353
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