Alternatives and similar repositories for gimbricate

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

• tlemane / kmdiff
  Differential k-mer analysis
  ☆38Updated last year
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆40Updated last year
• mkirsche / Grafter
  Scaffolding with Ultralong Reads
  ☆15Updated 5 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆25Updated 4 years ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• at-cg / RAFT
  ☆28Updated last year
• rchikhi / 2022-pangenome-graphs-intro
  ☆28Updated last year
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated last year
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆26Updated last week
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated 2 weeks ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆30Updated 5 months ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• davidebolo1993 / cosigt
  COsine SImilarity-based Genotyper using pangenomes
  ☆23Updated last week
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated last year
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆28Updated last year
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• marbl / rukki
  Extracting paths from assembly graphs
  ☆24Updated last year
• w-gao / pgv
  A web-based, interactive pangenome visualization tool
  ☆21Updated 2 years ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆14Updated 2 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• MoinSebi / gfa2bin
  ☆28Updated 4 months ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 4 years ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆27Updated 3 years ago
• shilpagarg / sdip
  ☆10Updated 5 years ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 6 months ago
• nadegeguiglielmoni / GraphUnzip
  Unzip assembly graphs with Hi-C data and/or long reads.
  ☆27Updated last year
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆34Updated 5 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆16Updated last year