Alternatives and similar repositories for HaploSync

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

• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 3 years ago
• jydu / maffilter
  The MafFilter genome alignment processor
  ☆19Updated 6 months ago
• schneebergerlab / GameteBinning
  ☆12Updated 4 years ago
• Uauy-Lab / pangenome-haplotypes
  Scripts to do haplotype analysis on pan genomes.
  ☆21Updated 5 years ago
• WarrenLab / chicken-pangenome-paper
  Scripts used to perform analyses in Rice et al. (2023)
  ☆15Updated last year
• shingocat / syntenyPlotByR
  plot genome alignment synteny
  ☆21Updated 5 years ago
• andreaminio / AnnotationPipeline-EVM_based-DClab
  Cantù Lab @ UC Davis - Annotation pipeline - EVM based
  ☆14Updated last year
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• yangli557 / AnnoSINE
  SINE annotation tool for plant genomes
  ☆18Updated last year
• esolares / HapSolo
  Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding
  ☆20Updated 8 months ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆14Updated 2 years ago
• LeilyR / Multi-genome-Reference
  A program to generate a graph which presents a simplified representation of several full length genomes
  ☆13Updated 7 years ago
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆22Updated 5 years ago
• alshai / vcf2msa
  convert a multi-sample VCF file to a multiple sequence alignment (C)
  ☆14Updated 6 years ago
• glogsdon1 / sunk-based_assembly
  ☆16Updated 4 years ago
• dawelab / Ab10-Assembly
  B73Ab10 genome assembly methods
  ☆17Updated 3 years ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆29Updated 5 months ago
• jnarayan81 / parallelLastz
  parallelLastz: Running Lastz in parallel
  ☆17Updated last year
• isugifNF / polishCLR
  A nextflow pipeline for polishing CLR assemblies
  ☆18Updated 2 years ago
• noecochetel / North_American_Vitis_Pangenome
  Construct and Analyze the North American Vitis pangenome
  ☆25Updated 3 months ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆22Updated last year
• njdbickhart / GoatAssemblyScripts
  A loose collection of scripts and utilities for processing and analyzing the Goat reference genome assembly
  ☆11Updated 8 years ago
• Markusjsommer / TD2
  TD2
  ☆23Updated 5 months ago
• GLBRC / sppIDer
  a tool to identify species and inter-species hybrids and chromosome copy number variants from short-read data
  ☆19Updated 6 years ago
• ChenHuaLab / HaploSweep
  HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.
  ☆11Updated last year
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆27Updated 4 months ago
• Adamtaranto / TRF2GFF
  Convert Tandem Repeat Finder dat file output into gff3 format
  ☆28Updated last week
• evotools / CattleGraphGenomePaper
  Set of script for the paper on the cattle graph genome
  ☆13Updated 2 years ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆29Updated last year
• vgteam / sv-genotyping-paper
  ☆31Updated 5 years ago