AdjustVariance: Adjust feature variance to remove effect of varying feature...

Description Usage Arguments Value

View source: R/data_processing.R

Description

Adjust feature variance to remove effect of varying feature means. Adapted from pagoda2: https://github.com/hms-dbmi/pagoda2

Usage

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AdjustVariance(counts, gam.k = 10, plot = F,
  max.adjusted.variance = 1000, min.adjusted.variance = 0.001,
  verbose = T, q.val = 0.05)

Arguments

counts

Input data matrix

gam.k

Number of additive models to use when fitting mean variance relationship

plot

Whether or not to plot the mean variance relationship

max.adjusted.variance

Maximum adjusted feature variance

min.adjusted.variance

Minimum adjusted feature variance

verbose

Whether or not to print output

q.val

Maximum adjusted p-value for a feature to qualify as overdispersed

Value

Dataframe with adjusted feature variances


yanwu2014/swne documentation built on Dec. 14, 2018, 3:07 p.m.