Arsenal
in Resources on Tools
This is my favorite resources’ page
TABLE OF CONTENTS
- Metabolic modeling
- Genomics and Metagenomics
- Databases
- Statistics for microbiome analysis
- My dictionary
Metabolic modeling
You may have a look at this e-book 
I’ve been working on.
Genomics and Metagenomics
| Tool | Description | Architecture | Repo | DOI |
|---|---|---|---|---|
| LocalHGT | ultrafast horizontal gene transfer detection from large microbial communities | stand-alone | GitHub | OA |
Databases
| Resource | Description | Link | DOI |
|---|---|---|---|
| tree | asd | ads | asd |
Statistics for microbiome analysis
My dictionary
In the following table I describe some terms I usually read/write about.
| Term | Description |
|---|---|
| richness | number of different taxa in a community |
| evenness | the commonness or rarity of a species |
| mucin | a family of high molecular weight, heavily glycosylated proteins (glycoconjugates) produced by epithelial tissues in most animals |
| effective number | refers to the number of equally abundant species needed to obtain the same mean proportional species abundance as that observed in the dataset of interest (where all species may not be equally abundant) |
| copiotrophs | taxa living in environments rich in nutrients |
