Alternatives and similar repositories for fastq-tools

Users that are interested in fastq-tools are comparing it to the libraries listed below

• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• andyrimmer / Platypus
  Platypus Variant Caller
  ☆108Updated last year
• jstjohn / SeqPrep
  Tool for stripping adaptors and/or merging paired reads with overlap into single reads.
  ☆144Updated 8 years ago
• dnanexus-rnd / GLnexus
  Scalable gVCF merging and joint variant calling for population sequencing projects
  ☆166Updated last year
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 6 years ago
• genome-in-a-bottle / giab_latest_release
  This repository contains information about latest release from Genome in a Bottle project
  ☆75Updated 6 years ago
• walaj / SeqLib
  C++ htslib/bwa-mem/fermi interface for interrogating sequence data
  ☆137Updated this week
• nh13 / DWGSIM
  Whole Genome Simulator for Next-Generation Sequencing
  ☆101Updated 9 months ago
• alastair-droop / fqtools
  An efficient FASTQ manipulation suite
  ☆138Updated 5 years ago
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆113Updated last week
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆134Updated 4 years ago
• parklab / bamsnap
  ☆123Updated last month
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 4 years ago
• AndersenLab / VCF-kit
  VCF-kit: Assorted utilities for the variant call format
  ☆130Updated 2 months ago
• relipmoc / skewer
  ☆95Updated 2 years ago
• CCDG / Pipeline-Standardization
  ☆82Updated 6 years ago
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆101Updated 3 years ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆154Updated 3 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆107Updated 3 years ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• PacificBiosciences / DevNet
  The DevNet project on github stores the PacBio DevNet website.
  ☆116Updated 7 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆149Updated last week
• statgen / bamUtil
  ☆91Updated 3 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆99Updated last year
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 7 years ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated 3 weeks ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆92Updated 5 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆246Updated this week
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆201Updated 4 years ago