Commit 81b3b65d authored by Eric CHARPENTIER's avatar Eric CHARPENTIER 🐍
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updated multiplates readme to take into account the possibility of specifing...

updated multiplates readme to take into account the possibility of specifing new factors for samples
parent cfaeb19a
......@@ -45,23 +45,26 @@ example:
> - The first condition column is the test and the second is the control
### Select samples and override sample conditions
If you need to select samples or override some sample conditions, you can do so by specifying a new samplesheet with the `-s` option.
If you need to select samples or override some sample conditions and/or factors, you can do so by specifying a new samplesheet with the `-s` option.
The samplesheet needs to be a tab separated file with two columns:
The samplesheet needs to be a tab separated file with two or three columns:
- first column: samples that you want to select
- second column: new condition of the sample
- third column(optionnal): new factor for the sample
| | |
| :--- | :--- |
| sample1 | conditionX |
| sample2 | conditionX |
| sample3 | conditionY |
| sample4 | conditionY |
| :--- | :--- | :--- |
| sample1 | conditionX | factor1 |
| sample2 | conditionX | factor2 |
| sample3 | conditionY | factor2 |
| sample4 | conditionY | factor1 |
> **Note:**
> - Conditions specified here must correspond to the comparisons file described above.
> - Conditions specified will override the ones described in the configuration files of the project folders
> - Factors specified will override the ones described in the configuration files of the project folders
> - If you need to override factors without changing the conditions of the samples, you will still have to specify the conditions in the second column.
## Running the pipeline
......
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