pqpq: PQPQ With Missing Values

In abell8/PQPQ: PQPQ For R Users

Description

This function implements the new'n'improved version of PQPQ, with an as-yet-undecided method of avoiding NAs in the distance matrix and allowing more peptides to remain when clustering.

Usage

pqpq(pepDataFixed, confList)

Arguments

pepDataFixed	An object of type 'pepObject' (from pmartRqc), which has been preferably normalized and filtered. The matrix 'e_data' has n rows.
confList	A list of n confidence values from 0 to 100, corresponding to the peptides in 'e_data'.

Value

A data frame with 3 columns:

• Protein: Which protein this peptide is associated with

• Peptide: The row name of the valid peptide

• ID: Which cluster the peptide is considered clustered to

See Also

pqpq_orig

abell8/PQPQ documentation built on May 20, 2019, 8:47 a.m.