Alternatives and similar repositories for duckdb-vcf-extension

Users that are interested in duckdb-vcf-extension are comparing it to the libraries listed below

• shenwei356 / strobemers
  A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)
  ☆15Updated 4 years ago
• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 4 years ago
• jdidion / pairwise-alignment
  Catalogue of pairwise alignment algorithms and benchmarks
  ☆26Updated 10 months ago
• vsbuffalo / hgindex
  Hierarchical binned indexed data store for on-disk genomic data.
  ☆14Updated 5 months ago
• COMBINE-lab / kmers
  A bit-packed k-mer representation (and relevant utilities) for rust
  ☆48Updated 11 months ago
• vgteam / GetBlunted
  For bluntifying overlapped GFAs
  ☆13Updated 10 months ago
• rchikhi / rust-alignbench
  Pairwise nucleotide alignment benchmark of Rust bindings
  ☆31Updated last year
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• brentp / pbr
  drunk on perbase pileups and lua expressions
  ☆19Updated last month
• yhoogstrate / fastafs
  toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files
  ☆22Updated 10 months ago
• angelovangel / faster
  A (very) fast program for getting statistics about a fastq file, the way I need them, written in Rust
  ☆32Updated 5 months ago
• jslfree080 / bamscope
  A command line tool (in Kotlin/JVM) for intuitively visualizing BAM alignments. (Currently unmaintained)
  ☆10Updated last year
• cschin / wavefront-aln
  A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring
  ☆15Updated last year
• iqbal-lab / cortex
  reference free variant assembly
  ☆33Updated last year
• nanoporetech / minimappy
  Python bindings to minimap2
  ☆16Updated 7 years ago
• nh13 / fqme
  ☆22Updated 6 months ago
• dnbaker / bonsai
  Bonsai: Fast, flexible taxonomic analysis and classification
  ☆71Updated last year
• vsbuffalo / genomap
  A Rust library for storing generic genomic data by sorted chromosome name
  ☆17Updated 8 months ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• esteinig / sketchy
  Genomic neighbor typing of bacterial pathogens using MinHash
  ☆44Updated 2 years ago
• natir / nuc2bit
  ☆14Updated 4 years ago
• 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
• iqbal-lab-org / minos
  Variant call adjudication
  ☆16Updated last year
• sgkit-dev / vcf-zarr-spec
  VCF Zarr Specification
  ☆15Updated last month
• jeizenga / wfalm
  Refinements of the WFA alignment algorithm with better complexity
  ☆26Updated 3 years ago
• stjude-rust-labs / chainfile
  A crate for working with genomics chain files.
  ☆11Updated 5 months ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 8 months ago
• bioinfologics / sdg
  Sequence Distance Graph framework: graph + reads + mapping + analysis
  ☆25Updated 3 years ago
• varfish-org / mehari
  VEP-like tool for sequence ontology and HGVS annotation of VCF files
  ☆20Updated this week
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆42Updated 8 months ago