Alternatives and similar repositories for HapPy:

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

• esolares / HapSolo
  Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding
  ☆20Updated last month
• kavonrtep / dante
  Domain based annotation of transposable elements
  ☆19Updated 2 months ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• simonhmartin / asynt
  Genome alignment and synteny plots
  ☆30Updated last year
• at-cg / RAFT
  ☆23Updated 8 months ago
• mkirsche / Grafter
  Scaffolding with Ultralong Reads
  ☆15Updated 4 years ago
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆23Updated 3 years ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆30Updated 3 years ago
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆24Updated last week
• jmsong2 / GenomeSyn
  We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …
  ☆25Updated 3 years ago
• JLSteenwyk / orthosnap
  a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
  ☆25Updated 2 months ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• institut-de-genomique / HAPO-G
  Hapo-G is a tool that aims to improve the quality of genome assemblies by polishing the consensus with accurate reads.
  ☆25Updated last year
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆37Updated 6 months ago
• isugifNF / polishCLR
  A nextflow pipeline for polishing CLR assemblies
  ☆17Updated 2 years ago
• wushyer / RGAAT_v2
  Add multiple thread function for genome comparison
  ☆15Updated 3 years ago
• bcgsc / ntSynt-viz
  Multi-genome synteny block visualization tool
  ☆33Updated 2 months ago
• moold / paf2dotplot
  Draw a dot plot from a paf alignment
  ☆27Updated 2 weeks ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆12Updated 2 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 4 years ago
• mjsull / DiscoPlot
  Visualising discordant reads
  ☆15Updated 9 years ago
• c-zhou / polyGembler
  ☆16Updated 2 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 3 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆29Updated 7 months ago
• mrvollger / NucFreq
  ☆35Updated last year
• A-J-F-Mackintosh / syngraph
  Toolkit for evolutionary analyses of linkage groups
  ☆31Updated 9 months ago
• GLBRC / sppIDer
  a tool to identify species and inter-species hybrids and chromosome copy number variants from short-read data
  ☆18Updated 5 years ago
• davidebolo1993 / cosigt
  ☆17Updated last week
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago