snakemake-workflows / single-cell-rna-seqLinks
A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
☆103Updated 2 years ago
Alternatives and similar repositories for single-cell-rna-seq
Users that are interested in single-cell-rna-seq are comparing it to the libraries listed below
Sorting:
- chromatin Variability Across Regions (of the genome!)☆181Updated last year
- ATAC-seq snakemake pipeline☆88Updated 5 years ago
- ☆63Updated last year
- Analysis pipeline for ATAC-seq Data☆62Updated 4 years ago
- mgatk: mitochondrial genome analysis toolkit☆108Updated 9 months ago
- Pipelines for the analysis of 10x single-cell RNA-sequencing data☆58Updated 2 years ago
- ☆120Updated 2 years ago
- HMMRATAC peak caller for ATAC-seq data☆99Updated 11 months ago
- Links to ATAC-seq analysis tools☆71Updated 4 years ago
- SEACR: Sparse Enrichment Analysis for CUT&RUN☆115Updated 2 years ago
- ☆118Updated 7 years ago
- nucleosome calling using ATAC-seq☆108Updated 4 years ago
- Basic workflow for ATAC-seq analysis☆88Updated last year
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆75Updated 2 years ago
- Efficient genotyping bi-allelic SNPs on single cells☆152Updated last year
- R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE☆98Updated last year
- Pipeline for initial analysis of droplet-based single-cell RNA-seq data☆93Updated 3 years ago
- Pileup biallelic SNPs from single-cell and bulk RNA-seq data☆80Updated 3 years ago
- Tools for single-cell data processing☆127Updated last year
- Clone of the Bioconductor repository for the DropletUtils package.☆62Updated 2 months ago
- A toolkit for QC and visualization of ATAC-seq results.☆71Updated 9 months ago
- Pipeline for processing inDrops sequencing data☆76Updated 7 years ago
- STAR based ENCODE Long RNA-Seq processing pipeline☆95Updated 4 years ago
- SNV calling from single cell sequencing☆112Updated 11 months ago
- Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods☆97Updated 2 years ago
- Create timecourse "fish plots" that show changes in the clonal architecture of tumors☆171Updated 2 years ago
- A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data☆79Updated 7 months ago
- Integrative pathway enrichment analysis of multivariate omics data☆115Updated 3 months ago
- A repository of pipelines for single-cell data in Nextflow DSL2☆76Updated 2 years ago
- ☆111Updated last year