mbhall88 / skc
Shared k-mer content between two genomes
☆17Updated last year
Alternatives and similar repositories for skc:
Users that are interested in skc are comparing it to the libraries listed below
- 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
- ☆16Updated 2 months ago
- Next Index to Query Kmer Intersection☆16Updated 2 years ago
- Robust individual and aggregate checksums for nucleotide sequences☆16Updated last year
- Iterate over minimizers of a DNA sequence☆28Updated 9 months ago
- Extracts subgraphs or components from a graph in GFA format☆23Updated 5 months ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆20Updated 5 months ago
- A FASTA/FASTQ format parser library☆20Updated last year
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆14Updated 7 months ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated last year
- MEMO: MEM-based pangenome indexing for k-mer queries☆18Updated 10 months ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆26Updated 2 years ago
- Minimizer-based assembly scaffolding and mapping using long reads☆38Updated 6 months ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 2 months ago
- k-mers and the like☆21Updated this week
- Hidden Markov Model based Copy number caller☆20Updated 6 months ago
- A bioinformatics tool written in Rust to find palindromic sequences in DNA☆34Updated 2 months ago
- convert variation graph alignments to coverage maps over nodes☆23Updated 2 months ago
- ☆19Updated 4 months ago
- ☆12Updated 4 months ago
- Utilities to detect and profile `het-kmers`☆11Updated 8 months ago
- ☆22Updated 4 months ago
- Hierarchical binned indexed data store for on-disk genomic data.☆14Updated 3 months ago
- Align subreads to ccs reads☆13Updated last year
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆25Updated 7 months ago
- A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring☆15Updated last year
- Embedding-based indexing for compact storage, rapid querying, and curation of bacterial pan-genomes☆10Updated last week
- Simulate mutations in genomes☆15Updated 4 years ago
- Variant call adjudication☆16Updated 10 months ago
- A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg☆12Updated 6 years ago