Alternatives and similar repositories for gbwtgraph

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

• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• VGP / vgp-tools
  ☆28Updated 4 months ago
• ban-m / jtk
  JTK -- a regional diploid genome assembler
  ☆25Updated 10 months ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 10 months ago
• jts / mbtools
  ☆14Updated last year
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆39Updated 5 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated last year
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆49Updated 4 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• AntonBankevich / jumboDB
  De Bruijn graph construction for large k.
  ☆18Updated 3 years ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆26Updated last year
• pangenome / pgvf-spec
  Pangenome Graph Variation Format (PGVF)
  ☆20Updated 4 years ago
• ryought / mummer-idotplot
  Generate interactive dotplot from mummer4 output using plotly
  ☆27Updated 5 years ago
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated last month
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• langmead-lab / vargas
  ☆25Updated 4 years ago
• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆31Updated 3 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆21Updated 4 months ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆35Updated 2 years ago
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆33Updated 4 years ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆24Updated 2 months ago
• bioinformatics-centre / AsmVar
  A software for discovery, genotyping and characterization of structural variants
  ☆22Updated 11 months ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 7 years ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated 2 weeks ago
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 2 weeks ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆33Updated 4 years ago
• ekg / HLA-zoo
  genome variation graphs constructed from HLA GRCh38 ALTs
  ☆23Updated 3 years ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 8 months ago