mta_dta: A data frame containing sample-level ERCC meta data

In CpmERCCutoff: Calculation of Log2 Counts per Million Cutoff from ERCC Controls

A data frame containing sample-level ERCC meta data

Description

A data frame containing sample-level ERCC meta data. In this experiment, subjects had repeated measures and the baseline samples were spiked with ERCC1 and four post-vaccination samples were each spiked with ERCC2. This meta data is used to create the 2-column data frame of sample pairs where the first column will contain sample IDs that received ERCC1, and the second column will contain sample IDs that received ERCC2. The pairs data frame is used as input to the 'pairs' argument in the 'getLowCpmCutOff' function. Use '?getLowCpmcutOff' to review example code regarding the formatting of the 'pairs' data frame.

Usage

mta_dta

Format

A data frame with 49 rows and 4 columns: Each row is a sample, and each column contains metadata such as subject IDs, spike in control type, and treatment groups. For this study, data was collected at various time points, however, under different experiment conditions, the 'day' column can be represented as treatment group.

samid

Sample IDs (SAM01 – SAM49)

subid

Subject/Participant ID (SUB01 – SUB10)

day

collection day (0 – 14)

spike

ERCC spike in control Mix (1 or 2)

CpmERCCutoff documentation built on Sept. 13, 2022, 5:06 p.m.