onecodex / needletail
Fast FASTX parsing and k-mer methods in Rust
☆185Updated last week
Alternatives and similar repositories for needletail:
Users that are interested in needletail are comparing it to the libraries listed below
- FASTA and FASTQ parsing in Rust☆76Updated last month
- The D4 Quantitative Data Format☆161Updated 2 months ago
- Flexible, uncertainty-aware variant calling with parameter free filtration via FDR control.☆124Updated this week
- Bam Error Stats Tool (best): analysis of error types in aligned reads.☆131Updated 2 months ago
- This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.☆324Updated last month
- Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.☆118Updated 4 years ago
- Randomly subsample sequencing reads or alignments☆227Updated 4 months ago
- Command line utility for manipulating Illumina-generated FASTQ files.☆85Updated last month
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆200Updated 3 years ago
- A set of command line utilities based on Rust-Bio.☆193Updated 9 months ago
- Per-base per-nucleotide depth analysis☆126Updated 3 months ago
- A pairwise sequence aligner written in Rust☆132Updated 2 weeks ago
- ☆51Updated 2 years ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆186Updated last week
- Fasten toolkit, for streaming operations on fastq files☆79Updated last week
- Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redunda…☆154Updated 4 months ago
- A small database of weird gene annotations☆202Updated 2 months ago
- A genomic minhashing implementation in Rust☆94Updated last year
- alignment to variation graph inducer☆147Updated 2 months ago
- Rust bindings to minimap2 library☆92Updated 3 months ago
- diploid SNV caller for error-prone reads☆199Updated 11 months ago
- bioinformatics toolkit in rust☆87Updated this week
- Read alignment statistics for metagenomics☆332Updated this week
- De Bruijn graphs in Rust☆66Updated 8 months ago
- 🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transc …☆181Updated last month
- Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs☆208Updated last week
- A fast K-mer counter for high-fidelity shotgun datasets☆124Updated 2 months ago
- Grep for FASTQ files☆96Updated last week
- minimizer-space de Bruijn graphs (mdBG) for whole genome assembly☆179Updated 6 months ago
- Yet Another Chimeric Read Detector☆78Updated 5 months ago