Alternatives and similar repositories for ATAC-seq

Users that are interested in ATAC-seq are comparing it to the libraries listed below

• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆81Updated 2 years ago
• JiekaiLab / scTE
  ☆112Updated last year
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆62Updated 4 years ago
• KChen-lab / Monopogen
  SNV calling from single cell sequencing
  ☆116Updated last year
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆118Updated 2 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆109Updated 10 months ago
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆73Updated 4 years ago
• xryanglab / RiboCode
  release version
  ☆55Updated 3 years ago
• fl-yu / CUT-RUNTools-2.0
  CUT&RUN and CUT&Tag data processing and analysis
  ☆113Updated 9 months ago
• 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 …
  ☆105Updated last week
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆92Updated 2 years ago
• 3UTR / DaPars2
  Dynamics analysis of Alternative PolyAdenylation from RNA-seq
  ☆63Updated 2 years ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆155Updated last month
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆74Updated 6 months ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆99Updated 2 months ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…
  ☆75Updated this week
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆39Updated last month
• harvardinformatics / ATAC-seq
  ☆144Updated 6 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆128Updated last year
• epi2me-labs / wf-single-cell
  ☆98Updated 2 weeks 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
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆97Updated 2 years ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆57Updated 3 weeks ago
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆72Updated last year
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆81Updated 3 years ago
• vaquerizaslab / fanc
  FAN-C: Framework for the ANalysis of C-like data
  ☆120Updated last year
• scottzijiezhang / m6A-seq_analysis_workflow
  A pipeline to process m6A-seq data and down stream analysis.
  ☆45Updated 5 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated 2 years ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆63Updated last year
• akdess / CaSpER
  ☆88Updated 4 years ago