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TRADIS_COMPARISON(1) |
User Commands |
TRADIS_COMPARISON(1) |
NAME¶
tradis_comparison - bio-tradis: compares two experimental conditions using the
method of Dembek et al.
SYNOPSIS¶
tradis_comparison [-h] [-f] [-t read cutoff] [-o
outputfile.csv] [-p outputplot.pdf] --controls controls.txt
--conditions conditions.txt
DESCRIPTION¶
Compares two experimental conditions using the method of Dembek et al. mBio
2015. Read counts per gene are compared using edgeR. This analysis requires
experimental replicates.
OPTIONS¶
Required Arguments:¶
- --controls
- control libraries, generally growth in a permissive condition
- --conditions
- libraries exposed to the experimental condition being compared
Optional Arguments:¶
- -o
- output filename
- -p
- output filename for diagnostic plots
- -f
- enable filtering on minimum read counts
- -t
- if --filter is enabled, sets minimum read count necessary in one
condition for a gene to be included in the comparison.
AUTHOR¶
This manpage was written by Andreas Tille for the Debian distribution and can be
used for any other usage of the program.