https://github.com/applicativesystem/microbiome-annotation
genome annotation analyzer for the microbiome analysis
https://github.com/applicativesystem/microbiome-annotation
bioinformatics genome-analysis microbiome microbiome-analysis microbiome-annotation microbiome-data
Last synced: 7 months ago
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genome annotation analyzer for the microbiome analysis
- Host: GitHub
- URL: https://github.com/applicativesystem/microbiome-annotation
- Owner: applicativesystem
- License: mit
- Created: 2024-08-21T18:01:09.000Z (11 months ago)
- Default Branch: main
- Last Pushed: 2024-08-21T19:13:02.000Z (11 months ago)
- Last Synced: 2024-11-10T20:18:13.348Z (8 months ago)
- Topics: bioinformatics, genome-analysis, microbiome, microbiome-analysis, microbiome-annotation, microbiome-data
- Language: Python
- Homepage:
- Size: 3.91 KB
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# metagenomics-abundance-normalize
- A metagenomics abundance normalizer which will take the abundance OTUs file and gives you a normalized ratio for plotting of the species.
- Normally when you plot OTUs, the OTU graph doesnt make sense as there are lot of OTUs and the clumpsy graph.
- This approach, takes a species abundance and then divide it by the total number of the OTUs associates with the species and gives you a number.
- You can plot as many species as you want and the analysis will look better and meaningful.
```
metagenomicsAbundanceNormalizer
("/Users/gauravsablok/Desktop/GitHub/shell_plotter/taxonomy_OTUs", \
"Clostridia", "100")
metagenomicsAbundanceNormalizer
("/Users/gauravsablok/Desktop/GitHub/shell_plotter/taxonomy_OTUs", \
"Porphyromonadaceae", "200")
2536.0
```
Gaurav Sablok \
University of Potsdam \
Potsdam,Germany