Galaxy |

FidoAdapter (version 2.8+galaxy0)

Input: identification results:

select idxml data sets(s)

Process multiple protein identification runs in the input separately, don't merge them:

Merging results in loss of descriptive information of the single protein identification runs

Post-process Fido output with greedy resolution of shared peptides based on the protein probabilities:

Also adds the resolved ambiguity groups to output

Omit clean-up of peptide sequences (removal of non-letter characters, replacement of I with L):

Consider all PSMs of each peptide, instead of only the best one:

Perform inference on protein group level (instead of individual protein level):

This will lead to higher probabilities for (bigger) protein groups

Binary logarithm of the max:

number of connected states in a subgraph. For a value N, subgraphs that are bigger than 2^N will be split up, sacrificing accuracy for runtime. '0' uses the default (18)

Probability values for running Fido directlies

Probability values for running Fido directly 0

Advanced Options

Advanced Options 0

Optional outputs: