sourmash, for large-scale biological sequence search!
Quickly search, compare, and analyze genomic and metagenomic data sets.
Pinned Repositories
2022-search-sra-with-mastiff
Tools and utilities for making use of mastiff
branchwater
Searching large collections of sequencing data with genome-scale queries
branchwater-old
Code and workflows for large-scale genomic search of e.g. the Sequence Read Archive
database-examples
Example workflows and useful scripts for building your own sourmash databases
databases
Build sourmash databases for genbank.
mastiff
sourmash
Quickly search, compare, and analyze genomic and metagenomic data sets.
sourmash-mixers
A meta-package to install a number of sourmash plugins!
sourmash_plugin_branchwater
fast, multithreaded sourmash operations: search, compare, and gather.
wort
A database for signatures of public genomic sources
sourmash, for large-scale biological sequence search!'s Repositories
sourmash-bio/sourmash
Quickly search, compare, and analyze genomic and metagenomic data sets.
sourmash-bio/wort
A database for signatures of public genomic sources
sourmash-bio/mastiff
sourmash-bio/sourmash_plugin_branchwater
fast, multithreaded sourmash operations: search, compare, and gather.
sourmash-bio/2022-search-sra-with-mastiff
Tools and utilities for making use of mastiff
sourmash-bio/databases
Build sourmash databases for genbank.
sourmash-bio/branchwater-old
Code and workflows for large-scale genomic search of e.g. the Sequence Read Archive
sourmash-bio/branchwater
Searching large collections of sequencing data with genome-scale queries
sourmash-bio/sourmash-mixers
A meta-package to install a number of sourmash plugins!
sourmash-bio/sourmash-examples
Example commands for doing sequence analysis with sourmash
sourmash-bio/sourmash_plugin_containment_search
An improved `search --containment` for sourmash
sourmash-bio/sourmash_plugin_sketchall
Sketch many files at once
sourmash-bio/sourmash_plugin_template
template for building sourmash plugins
sourmash-bio/2023-branchwater-validate
Validation and testing for sourmash branchwater
sourmash-bio/2024-benchmark-branchwater-plugin
Some simple benchmarking code for sourmash_plugin_branchwater
sourmash-bio/database-releases
Build infrastructure for official sourmash database releases
sourmash-bio/sourmash_plugin_avro
A sourmash plugin to read and write sketches using Apache Avro.
sourmash-bio/sourmash_plugin_betterplot
Improved plotting/viz and cluster examination for sourmash
sourmash-bio/sourmash_plugin_directsketch
sourmash-bio/sourmash_plugin_load_urls
sourmash plugin to load files from URLs with fsspec.
sourmash-bio/sourmash_plugin_randsampling
kmers extraction based on weighted-random-sampling
sourmash-bio/sourmash_plugin_venn
venn diagrams for sourmash sketches! (DEPRECATED)
sourmash-bio/.github
sourmash-bio/2024-benchmark-gather
Benchmarking code for various gather implementations
sourmash-bio/build-ncbi-lineages
build NCBI lineages file for sourmash taxonomy
sourmash-bio/parallel-pairwise
Brute-force multithreading clustering of sourmash sigs
sourmash-bio/sourmash.bio
sourmash-bio/sourmash_plugin_hashannot
sourmash utilities for annotating hashes with genomic information
sourmash-bio/sourmash_utils
Python utilities for sourmash plugins and scripts
sourmash-bio/sra_search