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1. scverse/scirpy scverse/scirpy Public

   A scanpy extension to analyse single-cell TCR and BCR data.

   Python 222 35

2. omnideconv/immunedeconv omnideconv/immunedeconv Public

   A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution methods

   R 469 101

3. nf-core/scrnaseq nf-core/scrnaseq Public

   A single-cell RNAseq pipeline for 10X genomics data

   Nextflow 218 175

4. rstudio-server-conda rstudio-server-conda Public

   Run Rstudio Server in a conda environment

   Shell 238 50

5. icbi-lab/infercnvpy icbi-lab/infercnvpy Public

   Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.

   Python 140 27

6. containerize-conda containerize-conda Public

   Turn an existing conda environment into a Singularity container

   Python 79 15