Hi bioBakery team,
I understand that MMUPhin only accepts proportions and read count (i.e., integer) values in the adjust_batch routine. However, we have some features where it would be important to also normalize for gene-length (in addition to sequencing depth). In this case, we have RPKM values that are floats / doubles that aren’t proportional in nature (i.e. don’t sum to 1 in each sample). Do you have any thoughts or suggestions on how or if we could include gene-length normalization (using something like RPKM in the feature_abd matrix) within the adjust_batch function?
Thank you for your support,