Alternatives and similar repositories for Multi-genome-Reference

Users that are interested in Multi-genome-Reference are comparing it to the libraries listed below

• jydu / maffilter
  The MafFilter genome alignment processor
  ☆19Updated 6 months ago
• andreaminio / HaploSync
  Tools for haplotype-wise reconstruction of pseudomolecules
  ☆22Updated 3 months ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• zeeev / DASVC
  De-novo Assembly Structural Variant Caller
  ☆13Updated 9 years ago
• ChenHuaLab / HaploSweep
  HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.
  ☆11Updated last year
• kammoji / gapFinisher
  A reliable gap filling pipeline for draft genomes
  ☆11Updated 6 years ago
• schneebergerlab / GameteBinning
  ☆12Updated 5 years ago
• evotools / CattleGraphGenomePaper
  Set of script for the paper on the cattle graph genome
  ☆13Updated 2 years ago
• esolares / HapSolo
  Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding
  ☆20Updated 9 months ago
• WarrenLab / chicken-pangenome-paper
  Scripts used to perform analyses in Rice et al. (2023)
  ☆16Updated last year
• at-cg / RAFT
  ☆28Updated last year
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆21Updated last year
• wf8 / homologizer
  Homologizer: phasing gene copies into polyploid subgenomes
  ☆10Updated 3 years ago
• jnarayan81 / parallelLastz
  parallelLastz: Running Lastz in parallel
  ☆17Updated last year
• davidebolo1993 / cosigt
  COsine SImilarity-based Genotyper using pangenomes
  ☆23Updated last week
• jmonlong / manu-vggafannot
  Efficient indexing and querying of annotations in a pangenome graph
  ☆10Updated last month
• isugifNF / polishCLR
  A nextflow pipeline for polishing CLR assemblies
  ☆18Updated 2 years ago
• njdbickhart / GoatAssemblyScripts
  A loose collection of scripts and utilities for processing and analyzing the Goat reference genome assembly
  ☆11Updated 8 years ago
• glogsdon1 / sunk-based_assembly
  ☆16Updated 4 years ago
• 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
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 3 years ago
• Uauy-Lab / pangenome-haplotypes
  Scripts to do haplotype analysis on pan genomes.
  ☆20Updated 5 years ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆14Updated 2 years ago
• alshai / vcf2msa
  convert a multi-sample VCF file to a multiple sequence alignment (C)
  ☆14Updated 6 years ago
• yangli557 / AnnoSINE
  SINE annotation tool for plant genomes
  ☆18Updated last year
• malonge / CallSV
  A long-read SV calling pipeline
  ☆12Updated 4 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆32Updated 4 years ago
• jradrion / TEFLoN
  TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.
  ☆13Updated 4 years ago