Alternatives and similar repositories for cutandrun

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

• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆110Updated 2 years ago
• PoisonAlien / trackplot
  Generate IGV style locus tracks from bigWig files in R
  ☆167Updated 9 months ago
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆82Updated last year
• epi2me-labs / wf-single-cell
  ☆94Updated this week
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆99Updated 8 months ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆125Updated 2 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆116Updated 6 months ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆62Updated last year
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆67Updated last year
• xryanglab / RiboCode
  release version
  ☆54Updated 3 years ago
• mhammell-laboratory / TElocal
  A package for quantifying transposable elements at a locus level for RNAseq datasets.
  ☆28Updated 6 months ago
• vaquerizaslab / fanc
  FAN-C: Framework for the ANalysis of C-like data
  ☆116Updated last year
• nloyfer / wgbs_tools
  tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
  ☆163Updated 2 months ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆192Updated 2 years ago
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆36Updated 2 years ago
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆144Updated 2 years ago
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆207Updated 3 weeks ago
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆67Updated 2 weeks ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆108Updated 6 months ago
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆68Updated 3 years ago
• haowenz / chromap
  Fast alignment and preprocessing of chromatin profiles
  ☆203Updated last week
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆103Updated 2 years ago
• crazyhottommy / pyflow-ATACseq
  ATAC-seq snakemake pipeline
  ☆89Updated 5 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆74Updated 2 years ago
• ucagenomix / sicelore
  Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…
  ☆75Updated 2 years ago
• harvardinformatics / ATAC-seq
  ☆137Updated 6 years ago
• MonashBioinformaticsPlatform / RSeQC
  fork of RSeQC python RNAseq metrics suit of tools
  ☆48Updated 6 years ago
• virajbdeshpande / AmpliconArchitect
  AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …
  ☆149Updated last year
• VanLoo-lab / ascat
  ASCAT R package
  ☆186Updated 4 months ago