Alternatives and similar repositories for gms:

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

• fls-bioinformatics-core / genomics
  Scripts, utilities and programs for genomic bioinformatics.
  ☆82Updated this week
• nunofonseca / irap
  integrated RNA-seq Analysis Pipeline
  ☆84Updated 6 years ago
• DaehwanKimLab / hisat
  Fast spliced aligner with low memory requirements
  ☆41Updated 9 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆48Updated 5 years ago
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆88Updated 5 years ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆52Updated 4 years ago
• hartleys / QoRTs
  Quality of RNA-Seq Toolset
  ☆53Updated 6 years ago
• Clinical-Genomics / genmod
  Annotate models of genetic inheritance patterns in variant files (vcf files)
  ☆79Updated last week
• nellore / rail
  Scalable RNA-seq analysis
  ☆73Updated 4 years ago
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 2 years ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• SciLifeLab / NGI-RNAseq
  Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.
  ☆51Updated 6 years ago
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆117Updated last year
• griffithlab / pVAC-Seq
  DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools
  ☆61Updated 5 years ago
• gt1 / biobambam2
  Tools for early stage alignment file processing
  ☆93Updated 6 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 3 years ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆113Updated 4 months ago
• brentp / cruzdb
  python access to UCSC genomes database
  ☆135Updated 4 years ago
• ChristofferFlensburg / superFreq
  Analysis pipeline for cancer sequencing data
  ☆110Updated 9 months ago
• gatk-workflows / gatk4-somatic-snvs-indels
  This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…
  ☆78Updated 5 years ago
• h3abionet / h3agatk
  ☆21Updated 4 years ago
• CCDG / Pipeline-Standardization
  ☆82Updated 6 years ago
• Ettwiller / Damage-estimator
  Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…
  ☆53Updated 7 years ago
• macarthur-lab / clinvar
  This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file…
  ☆124Updated 5 years ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆109Updated 6 years ago
• sequencing / isaac_variant_caller
  This project is deprecated, please see strelka2 at https://github.com/Illumina/strelka
  ☆37Updated 8 years ago
• broadinstitute / gatk-protected
  Obsolete/Legacy GATK repository -- go to https://github.com/broadinstitute/gatk instead
  ☆33Updated 7 years ago
• broadinstitute / oncotator
  ☆68Updated 2 years ago
• brentp / bio-playground
  miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
  ☆182Updated 6 years ago