Alternatives and similar repositories for hapdiff:

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

• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆12Updated last year
• mktle / colorSV
  somatic SV calling on matched tumor-normal co-assembly graphs
  ☆18Updated 5 months ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 3 years ago
• dfguan / asset
  assembly evaluation tool
  ☆34Updated 2 years ago
• rlorigro / GFAse
  Tool for globally phasing diploid assembly graphs with orthogonal data
  ☆39Updated last month
• vgteam / sv-genotyping-paper
  ☆31Updated 5 years ago
• mrvollger / NucFreq
  ☆35Updated 10 months ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆26Updated 3 months ago
• at-cg / RAFT
  ☆21Updated 4 months ago
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 3 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆27Updated 2 years ago
• esrice / trio_binning
  Programs implementing the trio-binning genome assembly method
  ☆19Updated last year
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 6 months ago
• GTPB / CPANG22
  Computational Pangenomics
  ☆17Updated 2 years ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆46Updated 3 years ago
• AnimalGenomicsETH / bovine-graphs
  Integrate multiple genome assemblies into a pangenome graph
  ☆32Updated 2 years ago
• davidebolo1993 / cosigt
  ☆14Updated this week
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆22Updated last month
• human-pangenomics / hprc-tutorials
  ☆14Updated 9 months ago
• c-zhou / polyGembler
  ☆15Updated 2 years ago
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆20Updated 4 years ago
• moold / paf2dotplot
  Draw a dot plot from a paf alignment
  ☆24Updated 3 weeks ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆26Updated 2 years ago
• pangenome / HPRCyear1v2genbank
  building a human pangenome from the HPRCy1v2 genbank accessioned assemblies
  ☆14Updated last year
• shingocat / syntenyPlotByR
  plot genome alignment synteny
  ☆20Updated 4 years ago
• farhangus / Sniffles2_plot
  ☆27Updated 5 months ago
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆30Updated last month
• marbl / training
  Genome Assembly 102
  ☆13Updated this week
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 3 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆31Updated last week