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Waschina / MicrobiomeGS2

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Added a readme and a file to set up a conda environment #2

Closed Porthmeus closed 1 year ago

Porthmeus commented 1 year ago

Readme contains mainly installation instructions using conda.

Waschina commented 1 year ago

Hi Jan,

I made only a few changes to your readme and the other files. I tested it locally to install everything in its own conda env, and it seems to work; including the installation of libsbml via bioconda and the linking to the sybilSBML package.

Thanks again for your help and let me know if something is not working as expected.

Just a small note: I will optimize the documentation bit by bit to comply with the R CMD CHECK reports.

Porthmeus commented 1 year ago

Alright - thanks for merging!

I have played around with your code and it works like a charm ;-). Really appreciate the work you have put into it!

I have written some code to automatically test bacterial interactions without knowing the community composition - meaning testing pairwise co-culture and complete community culture against single growth - would you be interested to add some functions of that to your code? (see attachments). In that case - create an issue from this comment and I will see when I find time.

Crossfeeding.pdf GrowthVsSingle.pdf MetaboliteProduction.pdf