Alternatives and similar repositories for taxonomy

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

• rust-seq / minimizer-iter
  Iterate over minimizers of a DNA sequence
  ☆31Updated last year
• COMBINE-lab / kmers
  A bit-packed k-mer representation (and relevant utilities) for rust
  ☆48Updated last year
• yhoogstrate / fastafs
  toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files
  ☆22Updated last year
• onecodex / finch-rs
  A genomic minhashing implementation in Rust
  ☆99Updated 2 months ago
• lskatz / fasten
  Fasten toolkit, for streaming operations on fastq files
  ☆79Updated 4 months ago
• seqan / raptor
  A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
  ☆53Updated last week
• rust-seq / simd-minimizers
  A SIMD-accelerated library to compute random minimizers
  ☆33Updated last month
• rchikhi / rust-alignbench
  Pairwise nucleotide alignment benchmark of Rust bindings
  ☆31Updated 2 years ago
• shenwei356 / strobemers
  A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)
  ☆15Updated 4 years ago
• moold / kseq-rs
  A FASTA/FASTQ format parser library
  ☆20Updated last year
• dlesl / gb-io
  A Rust library for parsing, writing and manipulating Genbank sequence files
  ☆21Updated 4 months ago
• luizirber / nthash
  ntHash implementation in Rust
  ☆36Updated last year
• RagnarGrootKoerkamp / simd-sketch
  Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.
  ☆18Updated 2 months ago
• pairwise-alignment / pa-bench
  Benchmarking pairwise aligners
  ☆36Updated 6 months ago
• ArcInstitute / binseq
  A high efficiency binary format for sequencing data
  ☆69Updated last month
• natir / vcf2parquet
  Convert vcf in parquet
  ☆27Updated 7 months ago
• jguhlin / sfasta
  sfasta
  ☆35Updated 3 months ago
• markschl / seq_io
  FASTA and FASTQ parsing in Rust
  ☆79Updated 5 months ago
• anuradhawick / kmertools
  kmer based feature extraction tool for bioinformatics, metagenomics, AI/ML and more
  ☆32Updated 8 months ago
• chfi / rs-gfa
  GFA parser in Rust
  ☆31Updated 2 years ago
• fastqc-rs / fastqc-rs
  A quality control tool for FASTQ files written in rust
  ☆52Updated 2 months ago
• brentp / hts-zig
  ziglang + htslib
  ☆20Updated 3 years ago
• pepkit / looper
  A job submitter for Portable Encapsulated Projects
  ☆22Updated 5 months ago
• steineggerlab / petasearch
  🧬 Efficient parallelized peta-scale protein database search
  ☆41Updated last year
• imartayan / CBL
  A Rust library providing fully dynamic sets of k-mers with high locality
  ☆45Updated 10 months ago
• algbio / ggcat
  Compacted and colored de Bruijn graph construction and querying
  ☆84Updated last week
• informationsea / vcf-rs
  Rust implmentation of VCF parser
  ☆25Updated 2 years ago
• sourmash-bio / databases
  Build sourmash databases for genbank.
  ☆12Updated 2 years ago
• dnbaker / bonsai
  Bonsai: Fast, flexible taxonomic analysis and classification
  ☆72Updated last year
• biocommons / biocommons.seqrepo
  non-redundant, compressed, journalled, file-based storage for biological sequences
  ☆42Updated this week