biobakery_workflows
sourmash


biobakery_workflows | sourmash | |
---|---|---|
1 | 1 | |
106 | 486 | |
0.0% | 0.8% | |
4.6 | 9.5 | |
25 days ago | 5 days ago | |
Python | Python | |
GNU General Public License v3.0 or later | GNU General Public License v3.0 or later |
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
biobakery_workflows
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Any good meta-transcriptomics pipelines
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
sourmash
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Any good meta-transcriptomics pipelines
have you seen https://www.nature.com/articles/s41587-019-0209-9?ref=https://githubhelp.com and https://github.com/sourmash-bio/sourmash ?
What are some alternatives?
GEMAP_NCLDV - Genome Mapping Analysis Pipeline for giant viruses
sequence_align - Efficient implementations of Needleman-Wunsch and other sequence alignment algorithms written in Rust with Python bindings via PyO3.
dndserver - Dark and Darker private server implementation written in Python
intertext - Detect and visualize text reuse
graphlan - High-quality circular representations of taxonomic and phylogenetic trees
DB-GPT - AI Native Data App Development framework with AWEL(Agentic Workflow Expression Language) and Agents
rustplus - Rust+ API Wrapper Written in Python for the Game: Rust
kneaddata - Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.
paroxython - Tag and recommend Python exercises based on algorithmic features

