dnbaker / bonsai
Bonsai: Fast, flexible taxonomic analysis and classification
☆70Updated last year
Alternatives and similar repositories for bonsai:
Users that are interested in bonsai are comparing it to the libraries listed below
- Histosketching Using Little Kmers☆56Updated last year
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- ☆28Updated 3 weeks ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆38Updated last year
- Classify sequencing reads using MinHash.☆48Updated 5 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 2 months ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- An integrated high performance bioinformatics toolkit☆23Updated 6 years ago
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆15Updated 4 years ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 4 years ago
- Whole genome core alignments from multiple draft genomes☆13Updated 8 years ago
- Small general purpose library for C and Python with focus on bioinformatics.☆30Updated 2 years ago
- Filter of Pairwise Alignement☆44Updated 3 years ago
- reference free variant assembly☆33Updated last year
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Updated 8 months ago
- ✏️ Genome assembly polishing & SNV detection☆68Updated 2 months ago
- flopp is a software package for single individual haplotype phasing of polyploid organisms from long read sequencing.☆37Updated last year
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆48Updated 10 months ago
- Homebrew formulae for bioinformatics software only available for Linux☆27Updated 5 years ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆44Updated 2 years ago
- Build sourmash databases for genbank.☆12Updated 2 years ago
- Metalign: efficient alignment-based metagenomic profiling via containment min hash☆33Updated last year
- Python bindings to minimap2☆16Updated 7 years ago
- Workflows I find helpful for fungal genome annotation☆21Updated last year
- Implicit Interval Tree with Interpolation Index☆41Updated 2 years ago
- Reference genome quality scores☆20Updated 4 years ago
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆59Updated last year
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆14Updated last year
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated last year