single-cell-genetics

cardelino

Clone identification from single-cell data

cellSNP

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

cellsnp-lite

Efficient genotyping bi-allelic SNPs on single cells

limix_qtl

MQuad

Tool for modelling of mitochondrial heteroplasmy

optimising_singlecell_eqtl_paper

Repository containing the code to reproduce the analyses contained in our manuscript: Optimising expression quantitative trait locus mapping workflows for single-cell studies

singlecell_endodiff_paper

Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

singlecell_neuroseq_paper

Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation

vireo

Demultiplexing pooled scRNA-seq data with or without genotype reference

XClone

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

single-cell-genetics/cellsnp-lite

Efficient genotyping bi-allelic SNPs on single cells

single-cell-genetics/vireo

Demultiplexing pooled scRNA-seq data with or without genotype reference

single-cell-genetics/cellSNP

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

single-cell-genetics/cardelino

Clone identification from single-cell data

single-cell-genetics/XClone

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

single-cell-genetics/singlecell_neuroseq_paper

Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation

single-cell-genetics/limix_qtl

single-cell-genetics/MQuad

Tool for modelling of mitochondrial heteroplasmy

single-cell-genetics/singlecell_endodiff_paper

Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

single-cell-genetics/optimising_singlecell_eqtl_paper

Repository containing the code to reproduce the analyses contained in our manuscript: Optimising expression quantitative trait locus mapping workflows for single-cell studies