example_sample_annotation: Sample annotation data version 1

In symbioticMe/proBatch: Tools for Diagnostics and Corrections of Batch Effects in Proteomics

Sample annotation data version 1

Description

This is data from BXD mouse population aging study with mock instruments to show how instrument-specific functionality works

Usage

example_sample_annotation

Format

A data frame with 233 rows and 11 variables:

FullRunName

name of the file with the measurement for each sample, referred to as sample_id_col

MS_batch

mass-spectrometry batch: 4-level factor of manually annotated batches

EarTag

mouse ID, i.e. ID of the biological object. Only 14 mice have been replicated, one mouse was profiled 7 times.

Strain

mouse strain ID from BXD population set - biological covariate #1, 51 Strain represented

Diet

diet, biological covariate #2 - either HFD = 'High Fat Diet' or CD = 'Chow Diet'

Sex

mice sex - biological covariate #3

RunDate

mass-spectrometry running date. In combination with RunTime used for running order determination. Vector of class "difftime" and "hms"

RunTime

mass-spectrometry running time. In combination with RunDate used for running order determination.Vector of class "POSIXct" and "POSIXt"

DateTime

numeric date and time generated by date_to_sample_order

order

order of samples generated by sorting DateTime in date_to_sample_order

digestion_batch

peptide digestion batch: 4-level factor of manually annotated batches

...

symbioticMe/proBatch documentation built on April 9, 2023, 11:59 a.m.