Allows differential exp plot to pick covariates

mani2012 / PathoStat

The purpose of this package is to perform Statistical Analysis on the PathoScope generated reports files.

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Allows differential exp plot to pick covariates #10

Closed tfaits closed 8 years ago

tfaits commented 8 years ago

These are the companion changes to the ones I made in server.R to the "differential expression" boxplot. Mostly, it allows the inputs to be from the phyloseq object instead of "batch" and "condition" vectors, and it allows users to select covariates of interest from a list. I added a copy of findPhyseqData() in order to populate the pull-down menu for covariates, but I don't expect that to be the final solution here.

mani2012 commented 8 years ago

Tyler, don't be in a hurry to send pull requests. Make sure everything is working before sending pull requests. One thing I noticed is that I am not sure whether you are updating the otu table counts based on the selected taxonomy level in your new update. Check everything is working and then send a pull request.