synapterTinyData: Loads a small test data for the 'synapter' package

In lgatto/synapter: Label-free data analysis pipeline for optimal identification and quantitation

Loads a small test data for the 'synapter' package

Description

Instead of using data to load the synapterTiny data set, synapterTinyData will load it and initialise it for proper downstream analysis, during which the 04_test_database.fasta file, provided with the package and references inside the object needs, to be accessed. However, as the exact location can not be known in advance, the reference is updated with the file's correct local path.

This data set has been generated with the Synapter constructor. Note that the input data file sizes have been reduced by depleting many rows (peptides and EMRTs) from the original csv files.

In addition, several columns that where not necessary for processing were also removed. As such, the data stored in synapterTiny does not relect the data obtained when following the section 'Preparing the input data' in the section, without however affecting the processing and final results.

Usage

synapterTinyData()

Value

A character vector with the data set name, "synapterTiny". Used for its side effect of loading synapterTiny, an instance of class Synapter, in .GlovalEnv.

Author(s)

Laurent Gatto

Source

Improving qualitative and quantitative performance for MSE-based label free proteomics, N.J. Bond, P.V. Shliaha, K.S. Lilley and L. Gatto, Journal of Proteome Research, 2013, in press.

The Effects of Travelling Wave Ion Mobility Separation on Data Independent Acquisition in Proteomics Studies, P.V. Shliaha, N.J. Bond, L. Gatto and K.S. Lilley, Journal of Proteome Research, 2013, in press.

Examples

synapterTinyData()
synapterTiny

lgatto/synapter documentation built on Sept. 28, 2022, 6:53 a.m.