samtools / htscodecsLinks
Custom compression for CRAM and others.
☆32Updated last week
Alternatives and similar repositories for htscodecs
Users that are interested in htscodecs are comparing it to the libraries listed below
Sorting:
- Parallel Block GZIP☆50Updated 8 years ago
- Fastq compression tool☆15Updated 5 years ago
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆84Updated last year
- SIMD-parallel BLAST X-drop DP on sequence graphs☆25Updated last year
- Compressing next-generation sequencing data with extreme prejudice.☆80Updated 3 years ago
- Truly parallel gzip decompression☆125Updated 5 years ago
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆84Updated this week
- Fastq compression☆18Updated 5 years ago
- SIMD C/C++ library for massive optimal sequence alignment (local/SW, infix, overlap, global)☆38Updated last year
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Updated 5 years ago
- efficient alignment of strings to partially ordered string graphs☆33Updated 3 years ago
- VBZ compression plugin for nanopore signal data☆40Updated last month
- FASTQ compression☆126Updated last year
- A fast, AVX2 and ARM Neon accelerated FM index library☆32Updated 5 months ago
- Generic hash table library in C☆31Updated 2 weeks ago
- A repository for generating strobemers and evalaution☆78Updated last year
- Cache-friendly, Parallel, and Samplesort-based Constructor for Suffix Arrays and LCP Arrays☆13Updated last week
- The libsais library provides fast linear-time construction of suffix array (SA), generalized suffix array (GSA), longest common prefix (L…☆210Updated 2 weeks ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆12Updated 6 years ago
- gsufsort: building suffix arrays, LCP-arrays and BWTs for string collections [AMB 2020]☆27Updated 3 months ago
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆47Updated last year
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated last year
- A tool for merging large BWTs☆26Updated 4 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated last year
- Efficient, parallel compression for terabyte-scale data☆42Updated 3 weeks ago
- utilities for indexing and sequence extraction from FASTA files☆59Updated 4 years ago
- modified from gitlab.com/manzai/Big-BWT to support fasta files☆9Updated 4 months ago
- BWT Text Indexing Library: a set of tools to work with BWT-based text indexes☆25Updated 3 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆40Updated 3 months ago
- Streaming algorithm for computing kmer statistics for massive genomics datasets☆54Updated 5 years ago