Multiple variants at the same position

[mschubert]

A sample can have multiple variants at the same position, for instance KRAS_G12D and KRAS_G12R.

Currently, the peptide table looks like the following:

mut_id	pep_id	type	peptide
KRAS_G12D	KRAS_G12	ref	MTEYKLVVVGA_G_GVGKSALTIQLIQNHFVDE
KRAS_G12D	KRAS_G12D	alt	MTEYKLVVVGA_D_GVGKSALTIQLIQNHFVDE
KRAS_G12R	KRAS_G12	ref	MTEYKLVVVGA_G_GVGKSALTIQLIQNHFVDE (duplicated)
KRAS_G12R	KRAS_G12R	alt	MTEYKLVVVGA_R_GVGKSALTIQLIQNHFVDE

The reference peptide KRAS_G12 is duplicated and hence removed from the unique peptides, leaving the alternative KRAS_G12R dangling.

We could leave them in (ok for most samples, because not many variants and the same position), or somehow address this (particularly relevant for hotspot libraries with many variants on one position)

[mschubert]

The easiest would probably be to use the common mut_id KRAS_G12