Alternatives and similar repositories for pywfa

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

• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 3 months ago
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆54Updated 3 years ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• Parsoa / SVDSS
  Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)
  ☆45Updated 2 weeks ago
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆49Updated last year
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆48Updated 4 years ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 4 months ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 9 months ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• pangenome / smoothxg
  linearize and simplify variation graphs using blocked partial order alignment
  ☆57Updated last month
• shenwei356 / wfa
  Wavefront alignment algorithm (WFA) in Golang
  ☆30Updated last month
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆51Updated 2 years ago
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆39Updated 11 months ago
• sourmash-bio / sourmash_plugin_branchwater
  fast, multithreaded sourmash operations: search, compare, and gather.
  ☆23Updated last week
• tlemane / kmdiff
  Differential k-mer analysis
  ☆37Updated last year
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆32Updated 2 weeks ago
• mrvollger / SafFire
  ☆30Updated 4 months ago
• broadinstitute / poasta
  Fast and exact gap-affine partial order alignment
  ☆54Updated last week
• ggonnella / gfaviz
  Graphical interactive tool for the visualization of sequence graphs in GFA format.
  ☆70Updated 6 years ago
• pierrepeterlongo / back_to_sequences
  ☆45Updated last month
• SouthGreenPlatform / panache
  Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…
  ☆45Updated 2 years ago
• MoinSebi / gretl
  Statistics and analysis for variation graphs
  ☆45Updated 9 months ago
• codeatcg / VRPG
  an interactive visualization and interpretation framework of reference-projected pangenome graphs
  ☆37Updated 7 months ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆36Updated last month
• jts / smrest
  Tumour-only somatic mutation calling using long reads
  ☆27Updated 10 months ago
• schatzlab / pseudohaploid
  Create a pseudohaploid assembly from a partially resolved diploid assembly
  ☆32Updated 5 years ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• JustinChu / ntsm
  This tools counts the number of specific k-mers within sequence data. The counts can then be compare to other counts to determine to comp…
  ☆29Updated 9 months ago