Alternatives and similar repositories for interop

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

• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆197Updated 4 years ago
• genome-in-a-bottle / giab_latest_release
  This repository contains information about latest release from Genome in a Bottle project
  ☆74Updated 5 years ago
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 3 years ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆134Updated 4 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆102Updated 4 years ago
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆98Updated 3 years ago
• alastair-droop / fqtools
  An efficient FASTQ manipulation suite
  ☆137Updated 5 years ago
• Illumina / Pisces
  Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
  ☆98Updated 3 years ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆152Updated 3 years ago
• SciLifeLab / Sarek
  Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
  ☆133Updated 5 years ago
• CCDG / Pipeline-Standardization
  ☆82Updated 6 years ago
• dcjones / fastq-tools
  Small utilities for working with fastq sequence files.
  ☆123Updated 2 years ago
• bioinform / varsim
  VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications
  ☆84Updated 8 months ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 5 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆97Updated last year
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆246Updated last week
• OpenGene / GeneFuse
  Gene fusion detection and visualization
  ☆128Updated 3 years ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 6 years ago
• Clinical-Genomics / genmod
  Annotate models of genetic inheritance patterns in variant files (vcf files)
  ☆79Updated 2 months ago
• mozack / abra
  Assembly Based ReAligner
  ☆74Updated 7 years ago
• relipmoc / skewer
  ☆94Updated 2 years ago
• walaj / SeqLib
  C++ htslib/bwa-mem/fermi interface for interrogating sequence data
  ☆137Updated last week
• biocommons / uta
  Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; a…
  ☆65Updated 2 months ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆114Updated 6 months ago
• AstraZeneca-NGS / VarDictJava
  VarDict Java port
  ☆134Updated last year
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆202Updated 4 years ago
• Illumina / Nirvana
  The nimble & robust variant annotator
  ☆181Updated last year