This is the command roc-at-cutoff.pl that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
roc-at-cutoff.pl - computes ROC/sensitivity/specificity at various/all thresholds
SYNOPSIS
cbtest.pl <input1> [input2 ...]
OPTIONS
Input file should be some alignment that has as a .rocr file (presumably generated by
filter.pl --rocr). Output is graphed to <basename>.cutoff.roc.png.
sensitivity/specificity requires a false negative count, and as such requires a
.filterstats file.
Other options:
--stat|predictor|x specifies what stat to use as a predictor
--samples|n sets number of samples (default is sample at each possible cutoff)
--maxsamples|maxn sets a max for n/samples
--clean forces a re-sampling of the .rocr file
--log can apply log scale to x or y or xy axes
--fn can specify a FN count for calculating sensitivity
--avg preload averages (normally found from filterstats)
(note: averages no drawn by default, so specify --avg (with no args) to
enable them)
--noavg don't plot the line for averages
--lwd can specify line weight
--format can specify output file format (default png)
--pdf set format to pdf
--nofstats disable searching for filterstats statistics
--nofn pretend not to have fn statistics (ie: skip sensitivity)
--fstats specify the filterstats file to use
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