Alternatives and similar repositories for gssw

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

• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆54Updated 3 years ago
• benedictpaten / sonLib
  Small general purpose library for C and Python with focus on bioinformatics.
  ☆30Updated 2 years ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• VGP / vgp-tools
  ☆28Updated last month
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆25Updated last year
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• vgteam / libhandlegraph
  Library for the Handle Graph abstraction
  ☆23Updated 2 months ago
• mklarqvist / tomahawk
  Fast calculations of linkage-disequilibrium in large-scale human cohorts
  ☆43Updated 5 years ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆33Updated 4 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆47Updated 6 years ago
• medvedevgroup / TwoPaCo
  A fast constructor of the compressed de Bruijn graph from many genomes
  ☆40Updated 4 months ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆42Updated last year
• cosmo-team / cosmo
  Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.
  ☆51Updated last year
• arshajii / ema
  Fast & accurate alignment of barcoded short-reads
  ☆33Updated last year
• ekg / fastahack
  utilities for indexing and sequence extraction from FASTA files
  ☆59Updated 4 years ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated 2 months ago
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆85Updated 3 months ago
• haowenz / sigmap
  A streaming method for mapping nanopore raw signals
  ☆32Updated 3 years ago
• brentp / indelope
  find large indels (in the blind spot between GATK/freebayes and SV callers)
  ☆39Updated 7 years ago
• lh3 / rmaxcut
  An experimental tool to find approximate max-cuts in a large graph
  ☆11Updated 4 years ago
• vpc-ccg / lordfast
  Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.
  ☆41Updated 5 years ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• nanoporetech / minimappy
  Python bindings to minimap2
  ☆16Updated 7 years ago
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆78Updated last year
• lh3 / lv89
  C implementation of the Landau-Vishkin algorithm
  ☆35Updated 3 years ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆58Updated 10 months ago
• pangenome / smoothxg
  linearize and simplify variation graphs using blocked partial order alignment
  ☆57Updated last month
• jkbonfield / crumble
  Exploration of controlled loss of quality values for compressing CRAM files
  ☆34Updated 2 years ago
• bcgsc / physlr
  Construct a Physical Map from Linked Reads
  ☆18Updated last year
• jasperlinthorst / reveal
  Graph based multi genome aligner
  ☆47Updated 3 years ago