zscore_bins: zscore_bins Calculate zscores from rpm scaled data. Adapted...

In brandonsie/bms: Brandon Sie's Personal R Package

zscore_bins Calculate zscores from rpm scaled data. Adapted from Michael Mina et al. 2019 DOI: 10.1126/science.aay6485

Description

zscore_bins Calculate zscores from rpm scaled data. Adapted from Michael Mina et al. 2019 DOI: 10.1126/science.aay6485

Usage

zscore_bins(
  rpm_control,
  rpm_sample,
  binsize = 300,
  include_percentile = c(0.05, 0.95),
  ignore_cols = c(),
  export_bins = TRUE,
  sd_min = NULL
)

Arguments

rpm_control	Reads per million (counts per million) data frame of control data from which to determine bins (e.g. beads only). Peptide order should match that of rpm_sample.
rpm_sample	Reads per million (counts per million) data frame of sample data for which to calculate z-scores. Peptide order should match that of rpm_control
binsize	Number of peptides per bin (default 300)
include_percentile	Peptide percentiles range to include in mean and sd calculation (default 0.05, 0.95)
ignore_cols	Column names to exclude from calculation (e.g. id column)
export_bins	Logical. if true, include a column called ranks indicating bins based on rpm_control values
sd_min	Default value NULL. If set to a numeric value or vector, can be used to impose a floor to the standard deviation. If a single value is given, the same floor is applied to the standard deviation of each bin. If a vector is provided, each value is applied sequentially.

brandonsie/bms documentation built on Nov. 17, 2023, 11:38 a.m.