samuell / gccontent-benchmarkLinks
Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)
☆57Updated 2 years ago
Alternatives and similar repositories for gccontent-benchmark
Users that are interested in gccontent-benchmark are comparing it to the libraries listed below
Sorting:
- A very fast interval tree data structure☆125Updated 8 months ago
- Alignment-based gene expression quantification☆28Updated last month
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Updated last year
- A genomic minhashing implementation in Rust☆99Updated 3 months ago
- FASTA and FASTQ parsing in Rust☆78Updated 6 months ago
- Benchmarking programming languages/implementations for common tasks in Bioinformatics☆184Updated 3 years ago
- The D4 Quantitative Data Format☆167Updated 5 months ago
- ☆57Updated 3 years ago
- ☆22Updated 3 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated last year
- Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.☆128Updated 4 years ago
- Bioinformatics Algorithms implemented in Rust for Learners☆31Updated 4 years ago
- ☆50Updated 3 years ago
- Simple succinct data structures (in Rust)☆50Updated 10 months ago
- Fast FASTX parsing and k-mer methods in Rust☆198Updated 2 months ago
- Pairwise nucleotide alignment benchmark of Rust bindings☆30Updated 2 years ago
- BAM CIGAR / MD transcoder for compact on-memory representation and quick drawing☆20Updated 2 years ago
- Make phylogenetic trees and lineages from the NCBI Taxonomy database☆13Updated 2 years ago
- Fasten toolkit, for streaming operations on fastq files☆79Updated 6 months ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 3 years ago
- Rust utility code☆32Updated last year
- Rust bindings to minimap2 library☆100Updated this week
- Implicit Interval Tree with Interpolation Index☆41Updated 3 years ago
- 1-code framework: docs, C-library, and tools☆23Updated last week
- modular k-mer count matrix and Bloom filter construction for large read collections☆84Updated last month
- Parallel Construction of Suffix Arrays in Rust☆26Updated 5 months ago
- Rust in bioinformatics and computational biology☆19Updated 2 years ago
- Compacted and colored de Bruijn graph construction and querying☆84Updated last month
- Efficient querying of biological databases☆42Updated 2 weeks ago
- Single-Cell RNA-seq pseudo-aligner☆51Updated last year