Alternatives and similar repositories for SEACR

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

• 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 …
  ☆91Updated this week
• PoisonAlien / trackplot
  Generate IGV style locus tracks from bigWig files in R
  ☆162Updated 7 months ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆181Updated 2 months ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆124Updated 2 years ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆192Updated 2 years ago
• harvardinformatics / ATAC-seq
  ☆135Updated 6 years ago
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆78Updated last year
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆142Updated 2 years ago
• crazyhottommy / pyflow-ChIPseq
  a snakemake pipeline to process ChIP-seq files from GEO or in-house
  ☆108Updated 5 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• ENCODE-DCC / rna-seq-pipeline
  ☆151Updated 2 years ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆92Updated 3 weeks ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆113Updated 2 years ago
• epi2me-labs / wf-single-cell
  ☆91Updated last week
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 6 months 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.
  ☆101Updated 2 years ago
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆60Updated last year
• saketkc / gencode_regions
  Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files
  ☆110Updated 3 years ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆251Updated 4 months ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆215Updated 4 months ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆62Updated last year
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated last year
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆201Updated 3 weeks ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆113Updated 4 months ago
• virajbdeshpande / AmpliconArchitect
  AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …
  ☆147Updated 11 months ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆94Updated 4 years ago
• TrinityCTAT / Trinity_CTAT
  ☆116Updated last year
• JiekaiLab / scTE
  ☆107Updated last year
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆133Updated 9 months ago
• vaquerizaslab / fanc
  FAN-C: Framework for the ANalysis of C-like data
  ☆114Updated last year