agartland/cycluster

Create modules of co-signaling cytokines for analysis of multiplexed cytokine data (e.g. Luminex)

cycluster's Issues

Issue with line 99 of preprocessing.py

Hi Andrew,

Not sure if this is a result of my inexperience with python3 or has something to do with how I'm setting up the input data, but to get things to work I had to change line 99 of preprocessing.py ( muVec = standardizedMean(cyDf, vars=compCommvars) ) to:
muVec = standardizedMean(cyDf, None)

For some reason the function was never recognizing compCommvars as defined, even though I verified that it was defined prior to the function call by printing it. Anyhow, it looks like your function has a workaround for missing compCommvars built in already, so it progressed, but wanted to see if you had thoughts on this.

Cheers,
Jeremy

Identifying the bootstrap_cluster module

Hi Andrew,

I've been unable to identify the python3 module "bootstrap_cluster" that is called by your initialization script. Could you provide some more details on what you're using here?

Thanks!