itpseq.DataSet.DE

DataSet.DE(pos='E:A', **kwargs)

Computes the log2-FoldChange for each motif described by pos for each sample in the DataSet relative to their reference

pos

position of the motif to consider. This ca be a range of positions (e.g. ‘-2:A’ for -2/E/P/A sites) or a combination of disjoint positions (e.g. ‘E,A’ for the combination of E and A sites).

Type:

str

itpseq.kwargs

parameters passed to Sample.get_counts computes the counts for the given motif. for example min_peptide=3 to consider only peptides of at least 3 amino acids.