COMBINE-lab / pufferfish2
☆15Updated last year
Alternatives and similar repositories for pufferfish2:
Users that are interested in pufferfish2 are comparing it to the libraries listed below
- Rust wrapper for the next generation (still currently in C++)☆24Updated last month
- Iterate over minimizers of a DNA sequence☆28Updated 8 months ago
- A FASTA/FASTQ format parser library☆20Updated last year
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆24Updated 3 weeks ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆49Updated last month
- A k-mer search engine for all Sequence Read Archive public accessions☆20Updated 5 months ago
- Fast and exact gap-affine partial order alignment☆49Updated 4 months ago
- Benchmarking pairwise aligners☆36Updated last month
- ☆14Updated last year
- Singular Genomics Demultiplexing Tool☆16Updated last year
- A Rust library providing fully dynamic sets of k-mers with high locality☆44Updated 6 months ago
- A tool for projecting genomic alignments to transcriptomic coordinates☆35Updated 10 months ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Updated last year
- ☆17Updated last year
- Tool to estimate deltas for sequence sets and answer questions about relative contribution☆21Updated this week
- convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.☆14Updated last year
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 4 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- A long read simulator based on badread idea☆22Updated 2 years ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆48Updated 9 months ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 2 years ago
- JTK -- a regional diploid genome assembler☆24Updated 5 months ago
- A Rust library for building modular, fast and compact indexes over genomic data☆13Updated last year
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated 11 months ago
- Snakemake pipeline for benchmarking read mappers☆16Updated last year
- Single-cell analysis methods in Rust☆21Updated 4 months ago
- bedtools-like functionality for interval sets in rust☆50Updated 7 months ago
- distance based phylogenetic placement☆26Updated last year
- a lexicographically-based GTF/GFF sorter☆33Updated 7 months ago