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

• crazyhottommy / pyflow-ATACseq
  ATAC-seq snakemake pipeline
  ☆88Updated 5 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆185Updated last year
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆76Updated 4 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated 2 years ago
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆62Updated 4 years ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆72Updated last year
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆98Updated last year
• tallulandrews / scRNASeqPipeline
  ☆118Updated 7 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆109Updated 11 months ago
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 7 years ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆120Updated 3 years ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆109Updated 5 years ago
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆96Updated 4 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆98Updated 2 years ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆65Updated last year
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆61Updated 3 months ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆95Updated 3 years ago
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆57Updated 2 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• reimandlab / ActivePathways
  Integrative pathway enrichment analysis of multivariate omics data
  ☆119Updated 6 months ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 6 years ago
• rpolicastro / scProportionTest
  ☆74Updated 2 years ago
• chrisamiller / fishplot
  Create timecourse "fish plots" that show changes in the clonal architecture of tumors
  ☆171Updated 2 years ago
• statgen / demuxlet
  Genetic multiplexing of barcoded single cell RNA-seq
  ☆131Updated last year
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆80Updated 2 years ago
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆92Updated last year
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆155Updated 2 months ago
• drisso / bioc2016singlecell
  Bioconductor workshop: Analysis of single-cell RNA-seq data with R and Bioconductor
  ☆80Updated 9 years ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆81Updated last week