dcjones / quip
Compressing next-generation sequencing data with extreme prejudice.
☆78Updated 2 years ago
Related projects ⓘ
Alternatives and complementary repositories for quip
- This project is deprecated, please see strelka2 at https://github.com/Illumina/strelka☆38Updated 7 years ago
- Estimating k-mer coverage histogram of genomics data☆76Updated 10 months ago
- ☆30Updated 7 years ago
- BWT-based index for graphs☆71Updated this week
- utilities for indexing and sequence extraction from FASTA files☆59Updated 3 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 7 months ago
- Create Bloom filters for a given reference and then use it to categorize sequences☆75Updated last week
- CRAM format specification and java API for read data.☆58Updated 6 years ago
- Streaming algorithm for computing kmer statistics for massive genomics datasets☆53Updated 4 years ago
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Updated 2 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆107Updated last month
- Adaptive semi-global banded alignment on string graphs☆63Updated 6 years ago
- Implementation of Positional Burrows-Wheeler Transform for genetic data☆100Updated 7 months ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆67Updated 2 years ago
- A fast, AVX2 and ARM Neon accelerated FM index library☆30Updated 2 months ago
- adds sample names and read-group (RG) tags to BAM alignments☆52Updated 3 years ago
- DSRC - DNA Sequence Reads Compressor☆55Updated 2 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆65Updated 2 weeks ago
- NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms whil…☆86Updated 5 years ago
- Useful set of classes for creating statistical genetic programs.☆52Updated last year
- Assembly Based ReAligner☆71Updated 6 years ago
- Aligns short reads using dynamic seed size with strobemers☆149Updated 2 weeks ago
- Enhanced Artificial Genome Engine: next generation sequencing reads simulator☆32Updated 4 years ago
- Small utilities for working with fastq sequence files.☆114Updated 2 years ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Updated 2 years ago
- This is *NOT* the official repository of samtools.☆46Updated 7 years ago
- ☆81Updated 5 years ago
- GCLib - Genomic C++ library of reusable code for bioinformatics projects☆33Updated 4 months ago
- Fast calculations of linkage-disequilibrium in large-scale human cohorts☆41Updated 5 years ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆83Updated last week