Alternatives and similar repositories for chain2paf

Users that are interested in chain2paf are comparing it to the libraries listed below

• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆15Updated last month
• ekg / pafplot
  base-level dotplots from PAF alignments
  ☆26Updated last month
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆24Updated 2 months ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated 10 months ago
• chfi / pafview
  ☆17Updated 7 months ago
• Gaius-Augustus / clamsa
  ClaMSA (Classify Multiple Sequence Alignments).
  ☆13Updated 10 months ago
• marbl / T2T-Browser
  Genome browser hub for the T2T genomes and resources
  ☆23Updated last week
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 10 months ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆21Updated 5 months ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆18Updated last year
• ldenti / palss
  ☆22Updated last week
• Walfred-MA / Ctyper
  Genotyping of copy number sensitive allele-specific haplotypes
  ☆16Updated this week
• pierrepeterlongo / kmer2sequences
  Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.
  ☆21Updated last year
• collaborativebioinformatics / GeneVar
  ☆12Updated 3 years ago
• GP2code / CNV-Finder
  Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.
  ☆11Updated 3 months ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• MoinSebi / gfa2bin
  ☆25Updated last month
• ban-m / jtk
  JTK -- a regional diploid genome assembler
  ☆25Updated 11 months ago
• vgteam / GetBlunted
  For bluntifying overlapped GFAs
  ☆13Updated last year
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆26Updated last year
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆13Updated 3 years ago
• natir / biotest
  Generate random test data for bioinformatics
  ☆26Updated last year
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated 2 months ago
• Magdoll / CoSA
  Coronavirus (SARS-Cov-2) sequencing analysis
  ☆10Updated 3 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 3 years ago
• vsbuffalo / genomap
  A Rust library for storing generic genomic data by sorted chromosome name
  ☆17Updated 11 months ago
• mbhall88 / skc
  Shared k-mer content between two genomes
  ☆18Updated 2 years ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆16Updated last year