samtools / htscodecs
Custom compression for CRAM and others.
☆31Updated last month
Alternatives and similar repositories for htscodecs:
Users that are interested in htscodecs are comparing it to the libraries listed below
- A compressed, associative, exact, and weighted dictionary for k-mers.☆86Updated 3 months ago
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆83Updated 11 months ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated 7 months ago
- Fastq compression tool☆14Updated 5 years ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated last year
- VBZ compression plugin for nanopore signal data☆39Updated this week
- Truly parallel gzip decompression☆124Updated 5 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆108Updated 3 months ago
- Parallel Block GZIP☆49Updated 8 years ago
- A repository for generating strobemers and evalaution☆77Updated 9 months ago
- Compressing next-generation sequencing data with extreme prejudice.☆79Updated 2 years ago
- Global alignment and alignment extension☆130Updated last year
- A fast, AVX2 and ARM Neon accelerated FM index library☆31Updated last month
- SIMD C/C++ library for massive optimal sequence alignment (local/SW, infix, overlap, global)☆36Updated last year
- utilities for indexing and sequence extraction from FASTA files☆59Updated 3 years ago
- Library for the Handle Graph abstraction☆23Updated last month
- Slow5tools is a toolkit for converting (FAST5 <-> SLOW5), compressing, viewing, indexing and manipulating data in SLOW5 format.☆98Updated this week
- A tool for merging large BWTs☆26Updated 4 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 2 years ago
- Open Source MPEG-G Codec☆38Updated this week
- A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)☆165Updated 7 months ago
- The esa-matchfinder is a C99 library for efficient Lempel-Ziv factorization using enhanced suffix array (ESA).☆23Updated last year
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 10 months ago
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆81Updated 10 months ago
- gsufsort: building suffix arrays, LCP-arrays and BWTs for string collections [AMB 2020]☆26Updated last year
- Efficient, parallel compression for terabyte-scale data☆36Updated this week
- efficient alignment of strings to partially ordered string graphs☆33Updated 2 years ago
- Implicit Interval Tree with Interpolation Index☆41Updated 2 years ago
- Aligns short reads using dynamic seed size with strobemers☆160Updated this week
- C implementation of the Landau-Vishkin algorithm☆35Updated 2 years ago