Giulio Genovese

The instructions provided related to [data preparation](https://github.com/freeseek/mocha#data-preparation) explain to great depth how to input array data.

I do not understand what you are asking. Each parameter is optional and has an equal effect whether you run MoChA on array data or WGS data.

Yeah, good point. I was planning to release the script but I still have a few bugs that I have not ironed out. Can you reach out to me by...

MoChA does not have a framework to compare normal and tumor data. You can analyze the two together, but they will be called as separate samples. The GRCh37/GRCh38 resources are...

I am not sure what I would suggest you beyond what is already in the documentation.

(1) a very obvious cause for NaN values for the baf_auto variable is that your VCF was not phased (2) I am not sure why you are getting a could...

hi @jeantristanb, the gtc2vcf plugin can peek into the IDATs and can convert GTCs to VCF. However, you cannot convert IDATs to VCF with the plugin, as the IDATs do...

The current code for the affy2vcf plugin requires BCFtools version 1.14 or newer.

Well, I am not the writer of the Affymetrix tool `apt-probeset-genotype`. What error message are you getting?

If the error is: `FATAL ERROR:Can't read header for GenomeWideSNP_6.cdf. Description: Unable to open the file.` Then you need the file `GenomeWideSNP_6.cdf` in the analysis files path. You can follow...