Alternatives and similar repositories for umis

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

• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆109Updated 5 years ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆72Updated last year
• thelovelab / tximport
  Transcript quantification import for modular pipelines
  ☆143Updated 3 months ago
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆118Updated 7 years ago
• crazyhottommy / pyflow-ATACseq
  ATAC-seq snakemake pipeline
  ☆88Updated 5 years ago
• PMBio / peer
  A factor analysis package
  ☆104Updated 13 years ago
• bmvdgeijn / WASP
  WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery
  ☆110Updated 4 years ago
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆121Updated 2 years ago
• slowkow / snakefiles
  Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).
  ☆94Updated 8 years ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆98Updated last year
• hdng / clonevol
  Inferring and visualizing clonal evolution in multi-sample cancer sequencing
  ☆148Updated 5 years ago
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 7 years 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.
  ☆105Updated 3 years ago
• chrisamiller / fishplot
  Create timecourse "fish plots" that show changes in the clonal architecture of tumors
  ☆171Updated 2 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated 2 years ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆144Updated 2 years ago
• vastgroup / vast-tools
  A toolset for profiling alternative splicing events in RNA-Seq data.
  ☆84Updated 11 months ago
• yanailab / CEL-Seq-pipeline
  ☆33Updated 7 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆96Updated 4 years ago
• davismcc / archive-scater
  An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.
  ☆64Updated 8 years ago
• jernst98 / ChromHMM
  ☆92Updated 6 months ago
• GenomiqueENS / eoulsan
  A pipeline and a framework for NGS analysis (RNA-seq and scRNA-seq)
  ☆54Updated last month
• hbc / bcbioRNASeq
  R package for bcbio RNA-seq analysis.
  ☆63Updated last year
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆53Updated 5 years ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆100Updated 4 years ago
• BUStools / bustools
  Tools for working with BUS files
  ☆102Updated 7 months ago
• csf-ngs / fastqc
  csf fork of fastqc for usage on selected reads of unaligned bam file
  ☆48Updated 12 years ago
• joepickrell / fgwas
  Functional genomics and genome-wide association studies
  ☆69Updated 7 years ago
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• olgabot / rna-seq-diff-exprn
  RNA-Sequencing data differential expression analysis pipeline. Performs: genome coverage (via bedtools and HTSeq), generates Circos code …
  ☆56Updated 13 years ago