ben-laufer/DMRichR

next step after add a custom genome

Blondeau-Bidet opened this issue · 1 comments

Blondeau-Bidet commented

Hello Ben,

Thank you very much for your DMRichR package.

I am working with a non-model species and would like to use your package. I have followed your advice (issues #37 and #63) to generate my own TxDb, BSgenome and Org.db for my species. I have modified some of the code in DMRichR: annotationDatabases() and DM.R. and run the modified scripts.I am attaching the modified scripts and have highlighted the changes in yellow.

Now, I have 2 functions in my R environment with the modifications to add my genome. I'm not sure I've understood how to proceed next ? How do I run the analysis ?

Thanks for your help,

Eva

DM_dlabrax.odt
annotationDatabases_dlabrax.odt

Blondeau-Bidet commented

Update
I've modified the package to include the genome of my species. It works, but I get an error message with the processBismark function. I'm posting a new issue.