Alternatives and similar repositories for scATACpipe

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

• minoda-lab / universc
  UniverSC: a flexible cross-platform single-cell data processing pipeline
  ☆46Updated last year
• PierreBSC / Viral-Track
  ☆63Updated 5 years ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆81Updated 3 weeks ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆53Updated 2 years ago
• alexyermanos / Platypus
  R package for the analysis of single-cell immune repertoires
  ☆43Updated 11 months ago
• BIMSBbioinfo / ikarus
  Identifying tumor cells at the single-cell level using machine learning
  ☆49Updated last year
• saezlab / transcriptutorial
  This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL
  ☆56Updated 2 years ago
• almeidasilvaf / BioNERO
  Easy and comprehensive biological network reconstruction and analysis
  ☆34Updated 4 months ago
• nf-core / scflow
  Please consider using/contributing to https://github.com/nf-core/scdownstream
  ☆26Updated last year
• combiz / scFlow
  Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
  ☆57Updated this week
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆82Updated 3 years ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆42Updated 5 years ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆86Updated last month
• chung-lab / SCAFE
  Single Cell Analysis of Five'Ends
  ☆50Updated last year
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago
• huangyh09 / brie
  BRIE: Bayesian Regression for Isoform Estimate in Single Cells
  ☆42Updated last year
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆46Updated 2 years ago
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆33Updated 3 years ago
• 10XGenomics / subset-bam
  ☆82Updated 2 years ago
• liulab-dfci / RIMA_pipeline
  ☆90Updated 5 months ago
• McGranahanLab / TcellExTRECT
  ☆48Updated last year
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆44Updated 5 years ago
• noush-joglekar / scisorseqr
  scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two cond…
  ☆43Updated 2 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated 2 years ago
• lhe17 / nebula
  ☆46Updated 2 months ago
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆58Updated 4 years ago
• reimandlab / ActivePathways
  Integrative pathway enrichment analysis of multivariate omics data
  ☆119Updated 6 months ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆63Updated 2 months ago
• LieberInstitute / recount3
  Explore and download data from the recount3 project
  ☆37Updated 4 months ago