shenwei356 / strobemers
A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)
☆14Updated 3 years ago
Alternatives and similar repositories for strobemers:
Users that are interested in strobemers are comparing it to the libraries listed below
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Filter of Pairwise Alignement☆44Updated 3 years ago
- Classify sequencing reads using MinHash.☆48Updated 4 years ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆22Updated last year
- A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring☆15Updated last year
- drunk on perbase pileups and lua expressions☆17Updated last year
- Symmetric DUST for finding low-complexity regions in DNA sequences☆34Updated last year
- Iterate over minimizers of a DNA sequence☆27Updated 7 months ago
- Variant call adjudication☆16Updated 8 months ago
- Bam Read Index - Extract alignments from a bam file by readname☆24Updated 9 months ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Python bindings to minimap2☆16Updated 7 years ago
- ☆28Updated last year
- Minimizer-based assembly scaffolding and mapping using long reads☆36Updated 4 months ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆48Updated 7 months ago
- GBWT-based handle graph☆31Updated last week
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆49Updated this week
- A (very) fast program for getting statistics about a fastq file, the way I need them, written in Rust☆30Updated last month
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- A k-mer search engine for all Sequence Read Archive public accessions☆20Updated 3 months ago
- Small general purpose library for C and Python with focus on bioinformatics.☆29Updated 2 years ago
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Updated last year
- ☆22Updated 2 months ago
- Construct a Physical Map from Linked Reads☆18Updated 10 months ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆23Updated this week
- Histosketching Using Little Kmers☆55Updated last year
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Updated 6 months ago
- Toolkit for manipulating FASTA and SAM files☆17Updated 11 months ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated 10 months ago
- Shared k-mer content between two genomes☆17Updated last year