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An introduction to evaluating stuff with sourmash
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2025-ncbi-rest-api Public
Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t
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2025-atb-small-genomes Public
ref https://github.com/AllTheBacteria/AllTheBacteria/issues/54
Jupyter Notebook UpdatedFeb 22, 2025 -
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subtract database matches from sketches based on picklists, enabling alternative ksize/scaled/moltype
Python UpdatedFeb 15, 2025 -
Example flask application, with some bells and whistles
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2025-make-rocksdb-entire Public
Make combined eukaryotic, bacterial, and archaeal RocksDB database
Python UpdatedFeb 4, 2025 -
branchwater Public
Forked from sourmash-bio/branchwaterSearching large collections of sequencing data with genome-scale queries
HTML Other UpdatedJan 29, 2025 -
sourmash_plugin_directsketch-feedstock Public
Forked from conda-forge/sourmash_plugin_directsketch-feedstockA conda-smithy repository for sourmash_plugin_directsketch.
Shell BSD 3-Clause "New" or "Revised" License UpdatedJan 29, 2025 -
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2025-explore-sourmash-gather Public
Python BSD 3-Clause "New" or "Revised" License UpdatedJan 22, 2025 -
sourmash_plugin_branchwater-feedstock Public
Forked from conda-forge/sourmash_plugin_branchwater-feedstockA conda-smithy repository for sourmash_plugin_branchwater.
Shell BSD 3-Clause "New" or "Revised" License UpdatedJan 15, 2025 -
sourmash-minimal-feedstock Public
Forked from conda-forge/sourmash-minimal-feedstockA conda-smithy repository for sourmash-minimal.
Shell BSD 3-Clause "New" or "Revised" License UpdatedJan 15, 2025 -
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Python BSD 3-Clause "New" or "Revised" License Updated
Jan 4, 2025 -
plot_phylo Public
Forked from KatyBrown/plot_phyloPython package to plot a phylogenetic tree on an existing matplotlib axis.
Python MIT License UpdatedDec 30, 2024 -
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sourmash_alternate_implementations Public
Forked from KoslickiLab/sourmash_alternate_implementationsImplement prefetch in cpp to investigate potential speedups
Standard ML UpdatedDec 23, 2024 -
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workshop_r_basics Public
Forked from ucdavisdatalab/workshop_r_basicsReader for the R Basics workshop series.
R Other UpdatedNov 17, 2024 -
2024-debug-gather-difference Public
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assembly-exercise Public
Shotgun sequencing of text, in CGI script form
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2024-snakemake-delete Public
Odd behavior of `snakemake --delete-all-output`
Shell UpdatedSep 8, 2024 -
oxli-feedstock Public
Forked from conda-forge/oxli-feedstockA conda-smithy repository for oxli.
BSD 3-Clause "New" or "Revised" License UpdatedSep 2, 2024