getPPLR1
Compute pplr from mcmc expression samples
Usage
getPPLR -o
<outFileName>
[OPTIONS]
[sampleFile-C1]
[sampleFile-C1]
Overview
Computes PPLR from MCMC expression samples.
-
(the probability of second condition being up-regulated) Also computes log2 fold change with confidence intervals, and condition mean log expression. [sampleFiles] should contain transposed MCMC samples from different conditions.
Options
--help
-
Show this help information.
-d , --distribution
-
Produce whole distribution of differences. (default: Off)
--inputIsLogged
-
Indicate that the input expression estimates are on log scale. (Not necessary to use with data generated by BitSeq-0.5.0 and above.) (default: Off)
-o <outFileName> , --outFile=<outFileName>
-
Name of the output file.
-s <selectFileName> , --selectFile=<selectFileName>
-
File containing list of selected transcript IDs (zero based), only these will be reported. Only works with
--distributionoption.
--subSample=<subSample>
-
Sub-sample the distributions using a given fraction of expression samples. (default: 1)
-v , --verbose
-
Verbose output. (default: Off)
Releases
4 releases since Debian 10 (Buster); the text changed 2 times.