jernst98 / ChromHMM

Related projects ⓘ

Alternatives and complementary repositories for ChromHMM

• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆106Updated 3 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆74Updated last year
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 3 years ago
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆60Updated 3 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆120Updated 4 years ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆53Updated 3 years ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆98Updated 2 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆92Updated 3 years ago
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆57Updated last year
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆54Updated 3 weeks ago
• broadinstitute / PhylogicNDT
  ☆70Updated 6 months ago
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆31Updated 2 years ago
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆118Updated 6 years ago
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆50Updated 3 years ago
• vastgroup / vast-tools
  A toolset for profiling alternative splicing events in RNA-Seq data.
  ☆78Updated 3 months ago
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆73Updated 6 years ago
• NYU-BFX / hic-bench
  A set of pipelines for Hi-C and ChIP-Seq analysis.
  ☆43Updated 6 months ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆66Updated 3 weeks ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆43Updated 3 months ago
• liulab-dfci / MAGeCK
  Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent gen…
  ☆25Updated 3 years ago
• Henikoff / Cut-and-Run
  ☆30Updated 6 years ago
• ENCODE-DCC / hic-pipeline
  HiC uniform processing pipeline
  ☆57Updated last year
• biocore-ntnu / epic2
  Ultraperformant reimplementation of SICER
  ☆56Updated 3 years ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆102Updated last year
• 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…
  ☆72Updated last year
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆101Updated 4 months ago
• Nik-Zainal-Group / signature.tools.lib
  R package containing useful functions for mutational signature analysis
  ☆80Updated this week
• ay-lab / fithic
  Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…
  ☆79Updated 2 years ago
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆35Updated 3 years ago