Alternatives and similar repositories for vcf2msa

Users that are interested in vcf2msa are comparing it to the libraries listed below

• maxrossi91 / moni
  MONI: A Pangenomic Index for Finding MEMs
  ☆37Updated 3 months ago
• alshai / rowbowt
  run-length BWT tools for genomic sequences
  ☆19Updated 3 years ago
• rebeccaserramari / polyploid-potato-assembly
  Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspri…
  ☆15Updated last year
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆35Updated 2 years ago
• esolares / HapSolo
  Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding
  ☆20Updated 4 months ago
• kammoji / gapFinisher
  A reliable gap filling pipeline for draft genomes
  ☆11Updated 5 years ago
• MoinSebi / gfa2bin
  ☆24Updated 7 months ago
• andreaminio / HaploSync
  Tools for haplotype-wise reconstruction of pseudomolecules
  ☆20Updated 9 months ago
• at-cg / RAFT
  ☆25Updated 10 months ago
• pangenome / pgge
  the pangenome graph evaluator
  ☆27Updated 4 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• davidebolo1993 / cosigt
  ☆20Updated this week
• WarrenLab / chicken-pangenome-paper
  Scripts used to perform analyses in Rice et al. (2023)
  ☆15Updated last year
• slimsuite / diploidocus
  Diploid genome assembly analysis tools
  ☆14Updated 10 months ago
• jnarayan81 / parallelLastz
  parallelLastz: Running Lastz in parallel
  ☆16Updated 10 months ago
• marbl / rukki
  Extracting paths from assembly graphs
  ☆23Updated last year
• yangli557 / AnnoSINE
  SINE annotation tool for plant genomes
  ☆17Updated last year
• isugifNF / polishCLR
  A nextflow pipeline for polishing CLR assemblies
  ☆17Updated 2 years ago
• HuiyangYu / TGSFilter
  TGSFilter: An ultra-fast and efficient tool for long reads filtering and trimming
  ☆21Updated last year
• LeilyR / Multi-genome-Reference
  A program to generate a graph which presents a simplified representation of several full length genomes
  ☆13Updated 6 years ago
• w-gao / pgv
  A web-based, interactive pangenome visualization tool
  ☆21Updated 2 years ago
• sanger-tol / PretextMap
  Paired REad TEXTure Mapper. Converts SAM formatted read pairs into genome contact maps.
  ☆22Updated last week
• esrice / trio_binning
  Programs implementing the trio-binning genome assembly method
  ☆19Updated last year
• jydu / maffilter
  The MafFilter genome alignment processor
  ☆19Updated 2 months ago
• Markusjsommer / TD2
  TD2
  ☆13Updated last month
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆23Updated 3 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 4 years ago
• morisUtokyo / mTR
  tandem repeat finding from erroneous long reads
  ☆15Updated 3 years ago
• nadegeguiglielmoni / GraphUnzip
  Unzip assembly graphs with Hi-C data and/or long reads.
  ☆28Updated 9 months 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