graphlan
biobakery_workflows
| graphlan | biobakery_workflows | |
|---|---|---|
| 1 | 1 | |
| 92 | 107 | |
| - | 2.8% | |
| 3.0 | 5.6 | |
| 6 months ago | 2 months ago | |
| Python | Python | |
| MIT License | 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.
graphlan
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How would one code a graphic, chronogramatic display, of a timeline in concentric circles, instead of linear parallels? Alternately, a spiral, with "phase" giving "day and month"?
In fact, the more I think about it, the more I can see diagrams that it would make some amount of sense to wrap around in circles, flowing from a "core" to an "outside". Exergy diagrams, for example (Sankey, but wrapped around). Certain hierarchies/dendograms, we do talk a lot about "the inner circle" and the "center of power" as much as "the top rung" (this is commonly done with taxonomies, I understand). Growth phases, accident fallouts... but those are basically timelines too.
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
What are some alternatives?
kneaddata - Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.
sourmash - Quickly search, compare, and analyze genomic and metagenomic data sets.
python-mini-projects - A collection of simple python mini projects to enhance your python skills
dndserver - Dark and Darker private server implementation written in Python
pyCircos - python Circos
GEMAP_NCLDV - Genome Mapping Analysis Pipeline for giant viruses
taxopedia - Taxonomic trees (cladograms) from Wikipedia-scraped data.
DB-GPT - AI Native Data App Development framework with AWEL(Agentic Workflow Expression Language) and Agents
phylophlan - Precise phylogenetic analysis of microbial isolates and genomes from metagenomes