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
  ☆86Updated 4 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆93Updated 3 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated last year
• TrinityCTAT / Trinity_CTAT
  ☆116Updated last year
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆60Updated 3 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆162Updated 6 months ago
• harvardinformatics / ATAC-seq
  ☆125Updated 6 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆122Updated 4 years ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆57Updated 8 months ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆106Updated 2 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆89Updated last year
• tallulandrews / scRNASeqPipeline
  ☆118Updated 6 years ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆136Updated 4 years ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆122Updated 5 months ago
• PoisonAlien / trackplot
  Generate IGV style locus tracks from bigWig files in R
  ☆154Updated 3 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆90Updated 2 years ago
• rpolicastro / scProportionTest
  ☆60Updated last year
• nf-core / cutandrun
  Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream …
  ☆87Updated this week
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆72Updated 11 months ago
• JiekaiLab / scTE
  ☆104Updated 9 months ago
• crazyhottommy / pyflow-ChIPseq
  a snakemake pipeline to process ChIP-seq files from GEO or in-house
  ☆105Updated 4 years ago
• PierreBSC / Viral-Track
  ☆57Updated 4 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆122Updated 8 months ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆190Updated last year
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆206Updated last week
• hbctraining / Intro-to-ChIPseq-flipped
  ☆85Updated 7 months ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆117Updated 2 years ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated last year
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆44Updated last year