ADMIRE is also able to process a tab-separated sample definition file, with the following columns:
| column | explanation |
|---|---|
| sample_id | an arbitrary sample identifier. Note that corresponding green and red channel files need the same identifier. |
| file | relative or absolute path of a red or green channel idat file. |
| channel | indicates whether the file is from the red or green channel (can be Red or Grn). |
| sample_group | an arbitrary string identifying the sample group of the sample. |
For example, the sample definition file could look like:
sample_id file channel sample_group
1 8769527070/8769527070_R01C01_Grn.idat Grn control
1 8769527070/8769527070_R01C01_Red.idat Red control
2 8769527070/8769527070_R01C02_Grn.idat Grn treatment
3 8769527070/8769527070_R02C01_Red.idat Red treatment
ADMIRE can then be called with admire -s sample_definition.txt and will look for the *.idat files specified in the sample definition file.