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
  ☆108Updated 2 years ago
• PoisonAlien / trackplot
  Generate IGV style locus tracks from bigWig files in R
  ☆154Updated 4 months ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆190Updated last year
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆75Updated last year
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆196Updated last week
• harvardinformatics / ATAC-seq
  ☆127Updated 6 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated last year
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆111Updated 2 years ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆58Updated 10 months ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆119Updated 2 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆111Updated last month
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆101Updated 2 years ago
• nloyfer / wgbs_tools
  tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
  ☆142Updated last week
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆48Updated last year
• nf-core / differentialabundance
  Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
  ☆74Updated last week
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 4 months ago
• JiekaiLab / scTE
  ☆105Updated 10 months ago
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆140Updated last year
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆136Updated 4 years ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆208Updated last month
• xryanglab / RiboCode
  release version
  ☆51Updated 2 years ago
• zhxiaokang / RASflow
  RNA-Seq analysis workflow
  ☆104Updated 3 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 4 years ago
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆60Updated 3 years ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆176Updated 3 months ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆244Updated last month
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆88Updated last month
• 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…
  ☆73Updated last year
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆60Updated 3 years ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆124Updated 6 months ago