A Command Line Interface (CLI) for Statistical Analysis of Metagenomic Profiles (STAMP)
Information regarding STAMP can be found at: http://kiwi.cs.dal.ca/Software/STAMP
$ docker run -t -v ${PWD}/example:/data --name stamp1 hotdogee/stamp-cmd -i /data/otu.g.spf -g /data/Grouping.txt -d /out
$ docker cp stamp1:/out .
$ docker container rm stamp1
$ python stamp_cmd.py -h
usage: stamp_cmd.py [-h] -i PROFILE -g METADATA [-d OUTPUT] [-p PLOT]
[-t TABLE]
optional arguments:
-h, --help show this help message and exit
-i PROFILE, --profile PROFILE
Path to the profile file
-g METADATA, --metadata METADATA
Path to the group metadata file
-d OUTPUT, --output OUTPUT
Output directory (default: output)
-p PLOT, --plot PLOT
Plot filename template (default: {g1}-vs-{g2}.psig.png)
-t TABLE, --table TABLE
Table filename template (default: {g1}-vs-{g2}.test.xls)
$ docker build -f ./mkl/Dockerfile -t hotdogee/stamp-cmd:1.5.0 .
$ docker tag hotdogee/stamp-cmd:1.5.0 hotdogee/stamp-cmd:latest
$ docker push hotdogee/stamp-cmd