This repository has been archived by the owner on Mar 11, 2019. It is now read-only.
-
Notifications
You must be signed in to change notification settings - Fork 1
Utils
Marc Vaudel edited this page Feb 24, 2018
·
1 revision
Receives a file with several columns and writes one of the columns to another file.
java -cp target/PathwayMatcher-1.0/PathwayMatcher-1.0.jar no.uib.pathwaymatcher.tools.ColumnExtractor -i ../ERC/zBMI3-autosome.result [other options] [-pvc 18 -pvt 0.005]
| Parameter names | Required | Default value | Description |
|---|---|---|---|
-i,--input |
Yes | (empty) | File to parse |
-o,--output |
No | "./output.csv" | Output file path and name |
-c,--column |
No | 1 | Index of the desired column. Count starting with 0,1,2... |
-s,--separator |
No | " " | The string used as field separator. For example: space, tab, coma |
-p,--pattern |
No | "^rs\d*" | The regular expression pattern that the rows must follow |
-pvc,--pValueColumn |
No | 18 | p-value column index |
-pvt,--pValueThreshold |
No | 0.005 | p-value threshold. Only rows with this value or more will be sent to the output |
In case no pvc and pvt are provided, all the rows are considered.