Percolator auto-detects if search is separate t/d or concatenated. Since it does so by finding duplicate scan numbers, we get problems when using multiple fractions, leading to percolator using the mix-max algo.
We don't want that, and to enforce it we should use -Y. Likely get better scores as well.
Percolator auto-detects if search is separate t/d or concatenated. Since it does so by finding duplicate scan numbers, we get problems when using multiple fractions, leading to percolator using the mix-max algo.
We don't want that, and to enforce it we should use
-Y. Likely get better scores as well.