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

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

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.