lcb3_5: Data for exercise 5

In lgatto/QFeaturesScpWorkshop2021: Reproducing a single-cell proteomics data analysis using QFeatures and scp

Description

A QFeatures object that has been generated to run exercise 5. It was generated from the v02-scp.Rmd vignette that replicates the SCoPE2 data processing workflow for batch LCB3 up to data visualization. This dataset can be used to demonstrate the use of longFormat.

lcb3_5 contains 58 assays:

• Assay 1-24: PSM data for 24 MS runs

• Assay 25-48: aggregated peptide data for 24 MS runs

• Assay 49: joined peptide data containing the sample of all 24 MS runs

• Assay 50: peptide data after a first normalization

• Assay 51: peptide data after a second normalization

• Assay 52: peptide data after log-transformation

• Assay 53: aggregated protein data

• Assay 54: protein data after a first normalization

• Assay 55: protein data after a second normalization and imputation of missing data

• Assay 56: batch corrected protein data

• Assay 57: batch corrected protein data after a first normalization

• Assay 58: batch corrected protein data after a second normalization

Usage

data("lcb3_5")

Format

An object of class QFeatures of length 58.

See Also

Other exercise datasets are available: lcb3_1, lcb3_2, lcb3_3, lcb3_4.

lgatto/QFeaturesScpWorkshop2021 documentation built on Dec. 21, 2021, 10:44 a.m.