The first one is classical: the embedder modifies any position of the cover-data (a vector which is extracted from the cover-medium, and processed by the encoding scheme), the only constraint being the maximum number of modifications allowed.
The parameters for database searching included a maximum number of modifications (shift number) as 2, mass error tolerance as 10 ppm, "doOneDaltonCorrection" and "doChargeCorrection" as false, "cutoffType" as EVALUE, and cutoff as 0.01.
The Treasury puts the maximum number of potential modifications at 1.8 million, though it may be smaller.
Searches for trypsic peptides were performed with the following parameters: full-trypsin specificity, a mass tolerance of 5 ppm on the parent ion and 0.5 Da on the MS/MS, carbamidomethyl Cys as static modification and oxidized Met as dynamic modification, and maximum number of missed cleavages set at 2. All peptide matches with a peptide score below a p-value of 0.05 were filtered.
Measurement conditions were set according to the values recommended by the manufacturer with some modification; the maximum number of peaks for MS/MS acquisition per spot, the S/N filter, and spot-to-spot tolerance were set at 10,100 or 150, and 200 ppm, respectively.
There is a modification in the default configuration, referred to the maximum number of parents a node can have in the net structure, fixing it to 2. Thus, a Tree Augmented Bayes Network (TAN) is learned.
Maximum number of missed cleavages (excluding the cross-linking site) = 2, peptide length = 4 45, enzyme = trypsin, fixed modifications = carbamidomethyl-Cys (57.02146 Da), variable modification = Met-oxidation (15.99491 Da), mass shift of the light cross-linker (96.02112937 Da), MS tolerance = 10 ppm, MS tolerance = 0.2 for common ions and 0.3 Da for cross-linked ions.
The maximum number of rounds is three.
Wednesday's vote establishes only a maximum number of competitions.
(Maximum number of students at any one session is 20).
It also provides the ability to set a maximum number of jobs per schedule and a maximum shift length.
