Alternatives and similar repositories for jumboDB

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

• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆23Updated 5 months ago
• pangenome / pgvf-spec
  Pangenome Graph Variation Format (PGVF)
  ☆19Updated 4 years ago
• ban-m / jtk
  JTK -- a regional diploid genome assembler
  ☆24Updated 6 months ago
• PacificBiosciences / actc
  Align subreads to ccs reads
  ☆13Updated last year
• shenwei356 / wfa
  Wavefront alignment algorithm (WFA) in Golang
  ☆29Updated 6 months ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 6 months ago
• hanzou666 / msa2gfa
  A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg
  ☆12Updated 6 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆22Updated 4 years ago
• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆31Updated 3 years ago
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 7 months ago
• medvedevgroup / BubbZ
  ☆15Updated 4 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆36Updated last year
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆23Updated 3 months ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆17Updated 10 months ago
• piyuranjan / SNIKT
  Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bi…
  ☆17Updated 2 years ago
• Adamtaranto / TIRmite
  Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
  ☆10Updated last month
• mbhall88 / psdm
  Compute a pairwise SNP distance matrix from one or two alignment(s)
  ☆25Updated 8 months ago
• mchaisso / mcutils
  ☆12Updated 2 weeks ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆18Updated 11 months ago
• thegenemyers / PHASE-MERS
  Utilities to detect and profile `het-kmers`
  ☆11Updated 9 months ago
• bluenote-1577 / devider
  Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
  ☆23Updated 6 months ago
• jmonlong / pangenome-evaluation
  Pipeline to evaluate pangenomes, e.g. from the variation it contains or how well reads map
  ☆10Updated 3 years ago
• natir / rustyread
  A long read simulator based on badread idea
  ☆22Updated 2 years ago
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated 3 months ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 3 years ago
• marbl / training
  Genome Assembly 102
  ☆14Updated 2 weeks ago
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆17Updated 6 years ago
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆33Updated 4 years ago