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have you seen https://www.nature.com/articles/s41587-019-0209-9?ref=https://githubhelp.com and https://github.com/sourmash-bio/sourmash ?
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CodeRabbit
CodeRabbit: AI Code Reviews for Developers. Revolutionize your code reviews with AI. CodeRabbit offers PR summaries, code walkthroughs, 1-click suggestions, and AST-based analysis. Boost productivity and code quality across all major languages with each PR.
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biobakery_workflows
bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters.
The bio bakery has some meta-transcriptomic pipelines on it. They also maintain the mertaphlan and humann packages that are almost becoming the defacto standard when analysing shot gun reads. https://github.com/biobakery/biobakery_workflows
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I developed a pipeline for doing metatranscriptomics with time series data. Check it out here https://github.com/BenMinch/GEMAP_NCLDV
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How can one make Rust excel in the Sciences
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Rust+AWS+Lambda+RustLS+Bioinformatics-OpenSSL