Alternatives and similar repositories for naf

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

• St4NNi / jam-rs

  View on GitHub
  Just another minhash implementation.
  ☆12Updated this week
• TravisWheelerLab / sufr

  View on GitHub
  Parallel Construction of Suffix Arrays in Rust
  ☆26May 2, 2025Updated 9 months ago
• gregorykucherov / mreps

  View on GitHub
  mreps: software for tandem repeat identification in DNA
  ☆15Nov 13, 2019Updated 6 years ago
• rcedgar / urmap

  View on GitHub
  URMAP ultra-fast read mapper
  ☆38Jun 15, 2020Updated 5 years ago
• algbio / SRFAligner

  View on GitHub
  ☆13Dec 26, 2025Updated last month
• JMencius / LongBow

  View on GitHub
  Basecalling configuration prediction through FASTQ files
  ☆32Nov 24, 2025Updated 2 months ago
• althonos / pytrimal

  View on GitHub
  Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!
  ☆27Nov 25, 2025Updated 2 months ago
• kowallus / mbgc

  View on GitHub
  Multiple Bacteria Genome Compressor (MBGC)
  ☆11Dec 5, 2025Updated 2 months ago
• zhaoxiaofei / bindash

  View on GitHub
  Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop
  ☆72Jul 31, 2025Updated 6 months ago
• rvaser / sword

  View on GitHub
  SWORD - a highly efficient protein database search
  ☆26Jan 15, 2024Updated 2 years ago
• wh-xu / Hyper-Gen

  View on GitHub
  HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors
  ☆30Aug 26, 2024Updated last year
• althonos / nafcodec

  View on GitHub
  Rust coder/decoder for Nucleotide Archival Format (NAF) files.
  ☆10Jan 31, 2025Updated last year
• Amjad-Khalaf / Inverted-kmers

  View on GitHub
  Identifying large scale inversions between two genomes by mapping genome 1's unique kmers onto genome 2.
  ☆10Jun 6, 2025Updated 8 months ago
• althonos / pysylph

  View on GitHub
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆20Dec 12, 2024Updated last year
• althonos / gb-io.py

  View on GitHub
  A Python interface to gb-io, a fast GenBank parser written in Rust.
  ☆24Jan 28, 2026Updated 2 weeks ago
• dlesl / gb-io

  View on GitHub
  A Rust library for parsing, writing and manipulating Genbank sequence files
  ☆21Apr 20, 2025Updated 9 months ago
• OndrejSladky / fmsi

  View on GitHub
  FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform
  ☆23Nov 20, 2025Updated 2 months ago
• mbhall88 / nohuman

  View on GitHub
  Remove human reads from a sequencing run
  ☆47Dec 16, 2025Updated 2 months ago
• rrwick / Minipolish

  View on GitHub
  A tool for Racon polishing of miniasm assemblies
  ☆78Sep 5, 2025Updated 5 months ago
• yunwilliamyu / opal

  View on GitHub
  Metagenomic binning using low-density hashing a support vector machine
  ☆20Oct 2, 2020Updated 5 years ago
• biointec / columba

  View on GitHub
  Fast Approximate Pattern Matching using Search Schemes
  ☆16Jan 14, 2026Updated last month
• RagnarGrootKoerkamp / sassy

  View on GitHub
  Fast approximate string searching
  ☆99Updated this week
• yhoogstrate / fastafs

  View on GitHub
  toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files
  ☆22Aug 13, 2024Updated last year
• fastqc-rs / fastqc-rs

  View on GitHub
  A quality control tool for FASTQ files written in rust
  ☆52Jun 14, 2025Updated 8 months ago
• karel-brinda / ococo

  View on GitHub
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆46Jan 18, 2019Updated 7 years ago
• lmdu / pytrf

  View on GitHub
  a python package for finding tandem repeats from genomic sequences
  ☆29Mar 19, 2025Updated 10 months ago
• biodata-fun / htslib_howto

  View on GitHub
  Collection of simple C scripts for parsing vcf or bam files using the htslib C library. These scripts can be used as the starting point f…
  ☆11Dec 11, 2020Updated 5 years ago
• elsiklab / sashimiplot

  View on GitHub
  A JBrowse plugin for creating sashimi or junction style plots from RNA-seq data
  ☆14Apr 30, 2021Updated 4 years ago
• Kingsford-Group / miniception

  View on GitHub
  ☆14Jan 31, 2020Updated 6 years ago
• onecodex / finch-rs

  View on GitHub
  A genomic minhashing implementation in Rust
  ☆101Jun 17, 2025Updated 7 months ago
• Daniel-Liu-c0deb0t / ANTISEQUENCE

  View on GitHub
  Rust library for processing sequencing reads.
  ☆25Sep 2, 2024Updated last year
• lh3 / gwfa

  View on GitHub
  Proof-of-concept implementation of GWFA for sequence-to-graph alignment
  ☆56May 29, 2024Updated last year
• apcamargo / polars-pairing

  View on GitHub
  Plugin that provides pairing functions to the Polars library
  ☆14Feb 14, 2025Updated last year
• TavorB / spectral_jaccard_similarity

  View on GitHub
  ☆15Dec 8, 2022Updated 3 years ago
• lh3 / biofast

  View on GitHub
  Benchmarking programming languages/implementations for common tasks in Bioinformatics
  ☆185Dec 9, 2021Updated 4 years ago
• bcgsc / ntEdit

  View on GitHub
  ✏️ Genome assembly polishing & SNV detection
  ☆72Oct 3, 2025Updated 4 months ago
• Protein-Sequence-Annotation / PSALM

  View on GitHub
  Protein Sequence Annotation with Language Models
  ☆27Jan 24, 2026Updated 3 weeks ago
• DecodeGenetics / read_haps

  View on GitHub
  Detects human contamination in bam files
  ☆16Sep 10, 2020Updated 5 years ago
• Gaius-Augustus / clamsa

  View on GitHub
  ClaMSA (Classify Multiple Sequence Alignments).
  ☆13Nov 21, 2024Updated last year