Alternatives and similar repositories for msa2gfa

Users that are interested in msa2gfa are comparing it to the libraries listed below

• jmonlong / pangenome-evaluation
  Pipeline to evaluate pangenomes, e.g. from the variation it contains or how well reads map
  ☆10Updated 3 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• HKU-BAL / Translocator
  Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…
  ☆13Updated 5 years ago
• T2T-apes / ape_pangenome
  pangenome analyses for complete genomes of great apes (and gibbon)
  ☆17Updated 8 months ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆20Updated 2 months ago
• MoinSebi / gSV
  ☆11Updated 2 years ago
• pangenome / pgvf-spec
  Pangenome Graph Variation Format (PGVF)
  ☆20Updated 4 years ago
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 9 months ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• AndreaGuarracino / 1000G-ONT-F100-PGGB
  PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium
  ☆12Updated 2 months ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• chfi / gfainject
  ☆16Updated 2 years ago
• AntonBankevich / jumboDB
  De Bruijn graph construction for large k.
  ☆18Updated 3 years ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆17Updated last year
• medvedevgroup / BubbZ
  ☆15Updated 4 years ago
• thegenemyers / PHASE-MERS
  Utilities to detect and profile `het-kmers`
  ☆11Updated 10 months ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆22Updated 4 years ago
• Adamtaranto / TIRmite
  Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
  ☆10Updated 2 months ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆23Updated 7 months ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆18Updated last year
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• ekg / wflign
  the we-flyin WFA-guided ultralong tiling sequence aligner
  ☆11Updated 4 years ago
• fritzsedlazeck / sge_mummer
  Scripts to split reference and run mummer in parallel on an SGE cluster
  ☆11Updated 8 years ago
• uio-bmi / NucMerge
  Genome assembly quality improvement assisted by alternative assemblies and paired-end Illumina reads
  ☆7Updated 6 years ago
• marbl / training
  Genome Assembly 102
  ☆14Updated 2 months ago
• uio-bmi / pyvg
  Importing vg json graphs to Python data structures.
  ☆10Updated 4 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 8 months ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 4 years ago
• Walfred-MA / Ctyper
  Genotyping of copy number sensitive allele-specific haplotypes
  ☆15Updated 2 weeks ago
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆17Updated 6 years ago