lh3 / cgrangesLinks
A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)
☆168Updated last year
Alternatives and similar repositories for cgranges
Users that are interested in cgranges are comparing it to the libraries listed below
Sorting:
- Find all significant local alignments between reads☆142Updated last year
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆215Updated last year
- C++ htslib/bwa-mem/fermi interface for interrogating sequence data☆137Updated last month
- SIMD partial order alignment tool/library☆172Updated last year
- A fast K-mer counter for high-fidelity shotgun datasets☆131Updated 2 months ago
- Graphical Fragment Assembly (GFA) Format Specification☆212Updated 11 months ago
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆126Updated 3 weeks ago
- alignment to variation graph inducer☆150Updated last month
- This repo is DEPRECATED. Please use minimap2, the successor of minimap.☆106Updated 7 years ago
- Implementation of Positional Burrows-Wheeler Transform for genetic data☆110Updated 4 months ago
- Code examples of fast and simple k-mer counters for tutorial purposes☆171Updated 5 years ago
- Global alignment and alignment extension☆134Updated 2 years ago
- A repository for generating strobemers and evalaution☆79Updated last year
- An efficient index for the colored, compacted, de Bruijn graph☆111Updated 10 months ago
- A fast approximate aligner for long DNA sequences☆282Updated 10 months ago
- A complete diploid human genome☆124Updated last week
- Genotype and phase short tandem repeats using Illumina whole-genome sequencing data☆98Updated 2 years ago
- Fast multi-line FASTA/Q reader in several programming languages☆176Updated 4 years ago
- ABRA2☆92Updated 2 years ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆234Updated 11 months ago
- software tools for haplotype assembly from sequence data☆222Updated 6 months ago
- Structural variant detection and association testing☆108Updated 2 years ago
- Rapid sensitive and accurate read mapping via quasi-mapping☆90Updated 5 years ago
- An efficient FASTQ manipulation suite☆138Updated 5 years ago
- FASTQ compression☆130Updated last year
- Long read aligner☆115Updated 2 years ago
- ☆117Updated last year
- ☆123Updated last week
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆200Updated 3 years ago
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆127Updated 2 years ago