pangenome / pgge

Related projects ⓘ

Alternatives and complementary repositories for pgge

• MoinSebi / gretl
  Statistics and analysis for variation graphs
  ☆31Updated this week
• fawaz-dabbaghieh / bubble_gun
  ☆39Updated this week
• marschall-lab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆34Updated 9 months ago
• rchikhi / 2022-pangenome-graphs-intro
  ☆21Updated last month
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆33Updated last month
• dfguan / asset
  assembly evaluation tool
  ☆34Updated 2 years ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆34Updated 3 weeks ago
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆33Updated 4 years ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆21Updated last week
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• w-gao / pgv
  A web-based, interactive pangenome visualization tool
  ☆19Updated last year
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆15Updated 4 months ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆33Updated 9 months ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆25Updated 2 months ago
• marbl / rukki
  Extracting paths from assembly graphs
  ☆22Updated 6 months ago
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆22Updated 3 weeks ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆35Updated 11 months ago
• AntoineHo / HapPy
  Haploidy and Size Completeness Estimation
  ☆13Updated 7 months ago
• baoxingsong / genomeAlignment
  Compare different genome alignment tools using a wide range of genomes with different complexities.
  ☆13Updated last year
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆21Updated 3 months ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆23Updated 5 months ago
• lh3 / gffio
  ☆32Updated last year
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 3 years ago
• maojanlin / biastools
  ☆17Updated last month
• pangenome / impg
  implicit pangenome graph
  ☆44Updated 2 weeks ago
• mkirsche / Grafter
  Scaffolding with Ultralong Reads
  ☆14Updated 4 years ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 6 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 2 years ago
• mrvollger / NucFreq
  ☆32Updated 8 months ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆22Updated 7 months ago