catalogue
1 abundance
2 confidence
3 proteobench_entrapment
4 apb
5 chromatography
purpose
1 What each layer an APB2 rule marks abundance measures, and whether the software normalizes it across runs.
2 How likely each identification, or the signal quantified for it, is correct: PEP and q-values per run and per feature.
3 The precursor q-values ProteoBench's entrapment scoring ranks by, each key in each location its own score.
4 The fields APB and its apps write for every vendor, asked for by kind: ProForma identifiers, decoy and contaminant flags, role columns, sample annotations, and apb-fasta's peptide verification once it has run.
5 Retention times, elution-peak bounds and peak widths, with the unit the software reports them in.
used_by has_requirements entries
1 apb-prot.... TRUE 45
2 apb-aggr.... FALSE 26
3 apb-prot.... FALSE 7
4 apb-expo.... TRUE 268
5 apb-expo.... FALSE 58The catalogue sets
Description
Every catalogue set of the bundle with its purpose, its users and its number of entries.
Usage
catalogues()
Value
A data frame with columns catalogue, purpose, used_by (a list column), has_requirements and entries.