https://github.com/alexanderlabwhoi/areyouok-mer
Directory for the Snakemake workflow for checking sourmash similarities of protists
Science Score: 13.0%
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○CITATION.cff file
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○codemeta.json file
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○.zenodo.json file
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✓DOI references
Found 1 DOI reference(s) in README -
○Academic publication links
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○Scientific vocabulary similarity
Low similarity (3.5%) to scientific vocabulary
Last synced: 6 months ago
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Repository
Directory for the Snakemake workflow for checking sourmash similarities of protists
Basic Info
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- Stars: 0
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Created about 6 years ago
· Last pushed almost 6 years ago
https://github.com/AlexanderLabWHOI/areyouok-mer/blob/master/
# areyouok-mer eukhashing project! Directory for the Snakemake workflow for checking sourmash similarities of _Thaps_ experimental sequences and assembled genomes ## Steps Branch 1: Raw Sequences (experiments pulled from online) 1. Interleave/concatenate 2. Do error trimming (coverage 5-10%) - good tool available on Conda = https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-017-1469-3 https://anaconda.org/bioconda/afterqc 3. Sourmash with k = 21, 31, 51, track abundance Branch 2: pre-assembled 1. Sourmash step 2. Run on whole genome as well as just the coding region of the genome 3. Just work with cleaned assemblies, not combined assembles
Owner
- Name: Alexander Lab @ WHOI
- Login: AlexanderLabWHOI
- Kind: organization
- Email: halexander@whoi.edu
- Location: Woods Hole, MA
- Website: AlexanderLabWHOI.github.io
- Repositories: 17
- Profile: https://github.com/AlexanderLabWHOI