biobakery_workflows
bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters. (by biobakery)
kneaddata
Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments. (by biobakery)

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biobakery_workflows | kneaddata | |
---|---|---|
1 | 1 | |
106 | 114 | |
0.0% | 3.5% | |
4.6 | 4.3 | |
20 days ago | 6 days ago | |
Python | Python | |
GNU General Public License v3.0 or later | GNU General Public License v3.0 or later |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
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.
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
Posts with mentions or reviews of biobakery_workflows.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-12-29.
-
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
kneaddata
Posts with mentions or reviews of kneaddata.
We have used some of these posts to build our list of alternatives
and similar projects.
-
How to match up names of read pairs in constant memory?
I have, uh, a few of those files. But I've done https://github.com/biobakery/kneaddata/pull/16 and I think I'm good now!
What are some alternatives?
When comparing biobakery_workflows and kneaddata you can also consider the following projects:
sourmash - Quickly search, compare, and analyze genomic and metagenomic data sets.
graphlan - High-quality circular representations of taxonomic and phylogenetic trees
GEMAP_NCLDV - Genome Mapping Analysis Pipeline for giant viruses
tech-debt - Technical debt happens when low code quality slows new developments : you have to pay time interests. TechDebt allows you to quantify and track your technical debt.
dndserver - Dark and Darker private server implementation written in Python
PySnapStories - A Python script to download public Snapchat user stories from verified accounts, subjects and Map events.
Ficus - Scala-friendly companion to Typesafe config

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Nutrient - The #1 PDF SDK Library
Bad PDFs = bad UX. Slow load times, broken annotations, clunky UX frustrates users. Nutrient’s PDF SDKs gives seamless document experiences, fast rendering, annotations, real-time collaboration, 100+ features. Used by 10K+ devs, serving ~half a billion users worldwide. Explore the SDK for free.
nutrient.io
featured