Alternatives and similar repositories for pfasta

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

• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 3 months ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• kdm9 / axe
  Rapid competitive read demulitplexer. Made with tries.
  ☆23Updated 6 months ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• benedictpaten / sonLib
  Small general purpose library for C and Python with focus on bioinformatics.
  ☆31Updated 3 years ago
• mklarqvist / djinn
  C++ library for analysing and storing large-scale cohorts of sequence variant data
  ☆17Updated 6 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆45Updated 3 months ago
• fanhuan / AAF
  alignment and assembly free
  ☆14Updated 2 years ago
• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆30Updated 3 years ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• HongzheGuo / deBGA
  de Bruijn Graph-based read aligner
  ☆34Updated 7 years ago
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 3 years ago
• olga24912 / SGTK
  Example of SGTK application for E.coli dataset:
  ☆32Updated 5 years ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 4 months ago
• iqbal-lab / cortex
  reference free variant assembly
  ☆34Updated 2 years ago
• ITBE-Lab / MA
  The Modular Aligner and The Modular SV Caller
  ☆46Updated 2 years ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• medvedevgroup / BubbZ
  ☆15Updated 5 years ago
• sanger-pathogens / pymummer
  Python3 module for running MUMmer and reading the output
  ☆33Updated 7 months ago
• vibansal / hapcut
  program for haplotype phasing from sequence reads and related tools
  ☆25Updated 6 years ago
• lh3 / rtgeval
  Wrapper for RTG's vcfeval; DEPRECATED!
  ☆21Updated 9 years ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• 0xTCG / haptreex
  Haplotype phaser for next-generation sequencing data
  ☆13Updated 3 years ago
• lh3 / gffio
  ☆32Updated 2 years ago
• ekg / thesis
  my PhD thesis
  ☆36Updated 6 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• brentp / gsort
  sort genomic data
  ☆36Updated 2 weeks ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆46Updated 6 years ago
• hzi-bifo / Haploflow
  ☆30Updated 2 years ago
• PacificBiosciences / FALCON_unzip
  Making diploid assembly becomes common practice for genomic study
  ☆30Updated 8 years ago