synapterPlgsAgreement: Synapter/PLGS Agreement

Description Usage Arguments Details Value Author(s) References See Also

Description

This method checks the agreement between synapter analysis and PLGS results.

Usage

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## S4 method for signature 'MSnSet'
synapterPlgsAgreement(object, ...)

Arguments

object

An MSnSet object.

...

further arguments, not used yet.

Details

Each synapter object has synapterPlgsAgreement column in its MatchedEMRTs data.frame (see writeMatchedEMRTs). After converting the synapter object into an MSnSet instance via as(synapterobject, "MSnSet" this column could be find in the feature data (fData(msnset)$synapterPlgsAgreement).
In the synapterPlgsAgreement each peptide is classified as:

After combining multiple MSnSet the method synapterPlgsAgreement adds additional columns to the feature data:

Value

MSnSet where the columns nIdentified, nAgree, nDisagree and synapterPlgsAgreementRatio were added to the feature data.

Author(s)

Sebastian Gibb mail@sebastiangibb.de

References

See discussion on github: https://github.com/lgatto/synapter/issues/73

See Also

MSnSet documentation: MSnSet


synapter documentation built on Nov. 8, 2020, 6:25 p.m.