Antoine

Cynobacteria universe

2

Hi, First of all I want to say that CarveMe is really an amazing tool! Thanks for making it so easy to use! I am using it to reconstruct various...

Error in documentation and in cutreeHybrid

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Hi, thank you for your package! I tried to use it but I came across several issues: **in the documentation**: the WGCNA object is said to be initialized with geneExp...

Adding spearman correlation to findmodules

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Spearman correlation is widely use in biology especially when dealing with semi-quantitative data. This pull request implement spearman correlation in the main function findmodules.

[BUG] Adding unnecessary exchange reactions

3

### Problem description Hi, I have an issue with the models built with [CarveMe](https://github.com/cdanielmachado/carveme). When I load the model with cobra, it says: ``` Adding exchange reaction EX_12ppd__R_e with default...

Hi, I am trying to use the centropy function, however I don't understand the ```np.c_[x,y]``` ([here](https://github.com/gregversteeg/NPEET/blob/8b0d9485423f74e5eb199324cf362765596538d3/npeet/entropy_estimators.py#L36.)). This concatenates x and y along the columns which are the features, but as...