Alternatives and similar repositories for gffio

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

• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated last year
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated 2 weeks ago
• VGP / vgp-tools
  ☆28Updated 8 months ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 3 years ago
• pierrepeterlongo / back_to_sequences
  ☆45Updated 3 weeks ago
• ldenti / palss
  ☆23Updated 3 months ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆39Updated last year
• rchikhi / 2022-pangenome-graphs-intro
  ☆28Updated last year
• w-gao / pgv
  A web-based, interactive pangenome visualization tool
  ☆21Updated 2 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆24Updated last month
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆20Updated last year
• AlgoLab / malva
  genotyping by Mapping-free ALternate-allele detection of known VAriants
  ☆10Updated 2 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
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆40Updated last year
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated last year
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• SR-Martin / alvis
  ☆20Updated 2 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆25Updated 4 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 7 months ago
• kcleal / svbench
  Benchmark structural variant calls against a reference set
  ☆17Updated 2 weeks ago
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆32Updated 4 years ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆28Updated last year
• pangenome / pgge
  the pangenome graph evaluator
  ☆29Updated 4 years ago
• natir / fpa
  Filter of Pairwise Alignement
  ☆44Updated 3 years ago