Alternatives and similar repositories for fastx:

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

• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆31Updated 2 years ago
• ZekunYin / RabbitMash
  RabbitMash: an efficient highly optimized implementation of Mash.
  ☆21Updated last year
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 4 years ago
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆24Updated 8 months ago
• kcleal / pywfa
  Python wrapper for wavefront alignment using WFA2-lib
  ☆35Updated 2 months ago
• lh3 / gffio
  ☆32Updated 2 years ago
• karel-brinda / samsift
  SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.
  ☆23Updated 6 years ago
• mklarqvist / djinn
  C++ library for analysing and storing large-scale cohorts of sequence variant data
  ☆17Updated 5 years ago
• AlgoLab / malva
  genotyping by Mapping-free ALternate-allele detection of known VAriants
  ☆10Updated last year
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated last month
• namsyvo / IVC
  Integrated Variant Caller
  ☆17Updated 6 years ago
• jts / smrest
  Tumour-only somatic mutation calling using long reads
  ☆25Updated 2 months ago
• walaj / svlib
  Toolkit for extracting SVs from long sequences and benchmarking variant callers
  ☆13Updated 8 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 6 years ago
• VGP / vgp-tools
  ☆28Updated last year
• LeiHaoa / RabbitVar
  An Fast variant calling tool to detection germline and somatic variants
  ☆10Updated last year
• TimD1 / nPoRe
  nPoRe: n-Polymer Realigner for improved pileup-based variant calling
  ☆18Updated 2 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated 8 months ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 2 months ago
• cvdelannoy / poreTally
  Benchmark MinION assembler pipelines and publish your results in a heartbeat!
  ☆15Updated 4 years ago
• Magdoll / CoSA
  Coronavirus (SARS-Cov-2) sequencing analysis
  ☆10Updated 3 years ago
• benedictpaten / sonLib
  Small general purpose library for C and Python with focus on bioinformatics.
  ☆29Updated 2 years ago
• ryought / mummer-idotplot
  Generate interactive dotplot from mummer4 output using plotly
  ☆26Updated 4 years ago
• rvaser / rala
  Layout module for raw de novo genome assembly of long uncorrected reads.
  ☆21Updated 3 years ago
• pkubioinformatics / nanoreviser
  NanoReviser: An Error-correction Tool for Nanopore Sequencing Based on a Deep Learning Algorithm
  ☆28Updated 8 months ago
• delocalizer / streammd
  Single-pass probabilistic duplicate marking of alignments with a Bloom filter.
  ☆22Updated last year
• jengelmann / FastqPuri
  fastq quality assessment and filtering tool
  ☆18Updated 2 years ago
• benedictpaten / marginPhase
  ☆34Updated 4 years ago