search

cdanielmachado / smetana

SMETANA: a tool to analyse interactions in microbial communities
Other
56 stars 11 forks source link

Is it possible to generate the list of cross-fed metabolites between the pair of organism #8

Closed NTDevika closed 4 years ago

NTDevika commented 4 years ago

I am using smetana to generate the cross fed metabolites. Input Command smetana Lactobacillus_paracasei_ATCC_334.xml V_harveyi_QT520.xml --mediadb constrained_media_comp.tsv --flavor cobra Output community medium size mip mro all complete 2 n/a 0.7692307692307693

why is the mip score showing n/a? Further in smetana is their anyway , the program will output the list or name of cross-fed metabolites. Thank You!!

Originally posted by @NTDevika in https://github.com/cdanielmachado/smetana/issues/7#issuecomment-594460979

cdanielmachado commented 4 years ago

Yes, you must run smetana in detailed mode as described in the documentation:

https://smetana.readthedocs.io/en/latest/usage.html#global-vs-detailed-mode