avg.timeseries.plot: Calculate matrix of averages from meandat files and plot in...

Description Usage Arguments Author(s)

View source: R/avg.timeseries.plot.R

Description

Calculate matrix of averages from meandat files and plot in time series

Usage

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avg.timeseries.plot(indir, expnames, timepoints, splitnames, outdir,
  title = "Average signal in time series plot", xlab = "Time",
  ylab = "Signal intensity", filename = "avg_timeseries_plot",
  frommin = 0, savemx = FALSE)

Arguments

indir

Input director-y/-ies containing meandat files (xxx.mean.dat.gz). Files within one directory may be split by groups/quantiles etc.

expnames

Names of experiments using for plot (must be the same as number of entry directories in indir).

timepoints

Names of timepoints for plot (must be in the same order as in meandat files).

splitnames

Names of split meandat files (e.g by groups or quantiles of replication time or expression levels).

outdir

Output directory.

title

Main title of the plot

filename

Name of the output plot file

frommin

How many bp skeep from minimal value. Useful if necessary to exclude a region wihin nucleosome free regions (NFR), e.g. near TSS or ARS.

savemx

Save data matrix as csv for plots

Author(s)

Mark Boltengagen [email protected]


suvarzz/MNuc documentation built on Aug. 11, 2019, 6:45 a.m.