Alternatives and similar repositories for singleCellSeq

Users that are interested in singleCellSeq are comparing it to the libraries listed below

• hms-dbmi / scde
  R package for analyzing single-cell RNA-seq data
  ☆177Updated last year
• bvieth / powsimR
  Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially ex…
  ☆107Updated 2 years ago
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆99Updated 9 years ago
• alanocallaghan / scater
  Clone of the Bioconductor repository for the scater package.
  ☆96Updated 9 months ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 7 years ago
• davismcc / archive-scater
  An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.
  ☆64Updated 8 years ago
• drisso / bioc2016singlecell
  Bioconductor workshop: Analysis of single-cell RNA-seq data with R and Bioconductor
  ☆80Updated 9 years ago
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆104Updated 3 years ago
• chrisamiller / fishplot
  Create timecourse "fish plots" that show changes in the clonal architecture of tumors
  ☆172Updated 2 years ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆98Updated last year
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆58Updated 2 years ago
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆112Updated 5 years ago
• vals / umis
  Tools for processing UMI RNA-tag data
  ☆131Updated 2 years ago
• wjawaid / enrichR
  An R interface to enrichR
  ☆93Updated 10 months ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆148Updated 2 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆182Updated last year
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆107Updated 2 years ago
• crazyhottommy / pyflow-ATACseq
  ATAC-seq snakemake pipeline
  ☆88Updated 5 years ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆109Updated 4 years ago
• yanailab / CEL-Seq-pipeline
  ☆33Updated 7 years ago
• stephenturner / annotables
  R data package for annotating/converting Gene IDs
  ☆166Updated 5 months ago
• statgen / demuxlet
  Genetic multiplexing of barcoded single cell RNA-seq
  ☆131Updated last year
• mskcc / RNAseqDB
  ☆142Updated 7 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆95Updated 3 years ago
• kevinblighe / E-MTAB-6141
  Data from Lewis, Barnes, Blighe et al., Cell Rep. 2019 Aug 27; 28(9): 2455–2470.e5.
  ☆121Updated 5 years ago
• Teichlab / innate_evo
  ☆10Updated 7 years ago
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 7 years ago
• mgonzalezporta / TeachingMaterial
  RNA-seq data analysis practical
  ☆60Updated 11 years ago
• PMBio / scLVM
  scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources…
  ☆108Updated 2 years ago