Description
An hidden way that allow to ignore factors or/and plate effect if needed. User must know what he does when using it. This is a proposal, so fell free to comment this PR (ping @eric.charpentier)
How to use it
In order to ignore factor or plate effect, user must add a "normalizationOptions" entry in the comparisons part of the project in the config.json. The entry must describes a list that contains "--ignore-plate-effect" or/and "--ignore-batch-effect".
Example:
{
...
"comparisons": {
"TestProject": {
...
"normalizationOptions" : ["--ignore-plate-effect"],
...
}
}
}