limma:MakeContrasts integration issues

[aodainic7]

Hello Stefano,
in the pipeline you can use contrasts for the test_differential_abundance() to extract the comparison you are interested in. When using a formula with interaction (e.g. treatment*genotype), you create columns with colon (treatment:genotype) and limma::MakeContrasts does not accept it. If you manually modify the design matrix by exchanging : with _ the function works.
Cheers,
Alex

[stemangiola]

@aodainic7 test the branch #311

[aodainic7]

fixed