Alternatives and similar repositories for polyploid-potato-assembly

Users that are interested in polyploid-potato-assembly are comparing it to the libraries listed below

• WarrenLab / chicken-pangenome-paper
  Scripts used to perform analyses in Rice et al. (2023)
  ☆15Updated last year
• evotools / CattleGraphGenomePaper
  Set of script for the paper on the cattle graph genome
  ☆13Updated 2 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 7 months ago
• noecochetel / North_American_Vitis_Pangenome
  Construct and Analyze the North American Vitis pangenome
  ☆25Updated 2 months ago
• maiziezhoulab / LRSV_combo
  Long Read Based SV Calling Tools Analysis
  ☆14Updated last year
• jnarayan81 / parallelLastz
  parallelLastz: Running Lastz in parallel
  ☆17Updated last year
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 3 years ago
• alshai / vcf2msa
  convert a multi-sample VCF file to a multiple sequence alignment (C)
  ☆14Updated 6 years ago
• sc-zhang / ALLHiC_extensions
  Some components that speed up and reduce resource cost for original ALLHiC
  ☆14Updated 4 months ago
• phasegenomics / matlock
  Simple tools for working with Hi-C data
  ☆18Updated 6 years ago
• andreaminio / HaploSync
  Tools for haplotype-wise reconstruction of pseudomolecules
  ☆22Updated last month
• esrice / PBJelly
  a fork of the gap-closing pipeline PBJelly
  ☆15Updated 6 years ago
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆21Updated 11 months ago
• davidebolo1993 / cosigt
  COsine-based SImilarity Genotyper using pangenomes
  ☆21Updated last week
• sc-zhang / T2Tools
  T2Tools is a toolset contains several tools for T2T assembly, and it is under development.
  ☆15Updated last month
• Wenfei-Xian / TIPP
  Telomere local assembly, Improved whole genome polish, and Plastid assembly
  ☆21Updated 6 months ago
• HuiyangYu / TGSFilter
  TGSFilter: An ultra-fast and efficient tool for long reads filtering and trimming
  ☆25Updated last year
• magspho / hifieval
  a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).
  ☆21Updated last year
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated last year
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 4 months ago
• ChenHuaLab / HaploSweep
  HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.
  ☆11Updated last year
• Uauy-Lab / pangenome-haplotypes
  Scripts to do haplotype analysis on pan genomes.
  ☆21Updated 5 years ago
• schneebergerlab / GameteBinning
  ☆12Updated 4 years ago
• legumeinfo / pandagma
  Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.
  ☆17Updated 2 months 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
• jydu / maffilter
  The MafFilter genome alignment processor
  ☆19Updated 5 months ago
• njdbickhart / GoatAssemblyScripts
  A loose collection of scripts and utilities for processing and analyzing the Goat reference genome assembly
  ☆11Updated 8 years ago
• shingocat / syntenyPlotByR
  plot genome alignment synteny
  ☆21Updated 5 years ago
• wangziwei08 / LTR-insertion-time-estimation
  ☆16Updated 2 years ago