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1. scCNASim scCNASim Public

   Haplotype-aware simulation of somatic copy number alterations from single-cell and spatial transcriptomics

   Python 1

2. bcd bcd Public

   Benchmarking of CNA Detection from single-cell and spatial transcriptomics

   Python

3. single-cell-genetics/XClone single-cell-genetics/XClone Public

   Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.

   Python 38 5

4. xcltk xcltk Public

   Toolkit for XClone preprocessing to detect CNVs from scRNA-seq data

   Python 4 2

5. single-cell-genetics/cellsnp-lite single-cell-genetics/cellsnp-lite Public

   Efficient genotyping bi-allelic SNPs on single cells

   C 151 12

6. single-cell-genetics/cellSNP single-cell-genetics/cellSNP Public

   Pileup biallelic SNPs from single-cell and bulk RNA-seq data

   Python 80 11