Compute average intensity — aver_techreps • promor

This function computes average intensities across technical replicates for each sample.

Usage

aver_techreps(raw_df)

Arguments

raw_df: A raw_df object containing technical replicates.

Value

A raw_df object of averaged intensities.

Details

aver_techreps assumes that column names in the data frame follow the "Group_UniqueSampleID_TechnicalReplicate" notation. (Use head(raw_df) to see the structure of the raw_df object.)

See also

create_df

Author

Chathurani Ranathunge

Examples

## Use a data set containing technical replicates to create a raw_df object
raw_df <- create_df(
prot_groups = "https://raw.githubusercontent.com/caranathunge/promor_example_data/main/pg2.txt",
exp_design = "https://raw.githubusercontent.com/caranathunge/promor_example_data/main/ed2.txt",
tech_reps = TRUE
)
#> 0 empty row(s) removed.
#> 1 empty column(s) removed.
#> 12 reverse protein(s) (rows) removed.
#> 29 protein contaminant(s) (rows) removed.
#> 188 protein(s) identified by 2 or fewer unique peptides removed.
#> Zeros have been replaced with NAs.
#> Data have been log-transformed.

# Compute average intensities across technical replicates.
rawdf_ave <- aver_techreps(raw_df)