dcjones / coitreesLinks
A very fast interval tree data structure
☆127Updated 11 months ago
Alternatives and similar repositories for coitrees
Users that are interested in coitrees are comparing it to the libraries listed below
Sorting:
- A genomic minhashing implementation in Rust☆101Updated 6 months ago
- Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.☆129Updated 5 years ago
- FASTA and FASTQ parsing in Rust☆81Updated 9 months ago
- Alignment-based gene expression quantification☆35Updated 4 months ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Updated last year
- Fast FASTX parsing and k-mer methods in Rust☆204Updated 3 weeks ago
- Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)☆57Updated 2 years ago
- ☆50Updated 3 years ago
- A pairwise sequence aligner written in Rust☆145Updated 2 months ago
- Fast approximate string searching☆96Updated last week
- Bam Error Stats Tool (best): analysis of error types in aligned reads.☆138Updated 10 months ago
- Compacted and colored de Bruijn graph construction and querying☆91Updated last month
- Flexible, uncertainty-aware variant calling with parameter free filtration via FDR control.☆130Updated this week
- The D4 Quantitative Data Format☆169Updated last month
- ☆57Updated 3 years ago
- Simple succinct data structures (in Rust)☆53Updated 2 weeks ago
- Rust bindings to minimap2 library☆105Updated 3 weeks ago
- De Bruijn graphs in Rust☆72Updated last year
- Pairwise nucleotide alignment benchmark of Rust bindings☆30Updated 2 years ago
- ☆22Updated 3 years ago
- SIMD C/C++ library for massive optimal sequence alignment (local/SW, infix, overlap, global)☆39Updated last year
- Rust utility code☆32Updated last year
- Implicit Interval Tree with Interpolation Index☆42Updated 3 years ago
- A high-performance BigWig and BigBed library in Rust☆110Updated 2 months ago
- An efficient index for the colored, compacted, de Bruijn graph☆110Updated last year
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆20Updated last month
- modular k-mer count matrix and Bloom filter construction for large read collections☆85Updated 3 weeks ago
- Fasten toolkit, for streaming operations on fastq files☆81Updated 2 months ago
- Single-Cell RNA-seq pseudo-aligner☆52Updated last year
- Fast interval intersection library☆44Updated 4 months ago