Questions tagged [combat]

The tag has no usage guidance.

3 questions with no upvoted or accepted answers
Filter by
Sorted by
Tagged with
1
vote
2answers
202 views

How to remove batch effect from TCGA and GTEx data

I want to play some differentially expressed genes for gliomas cancer. I collected cancer tissue profiles from the TCGA database and normal tissue profiles from the GTEx database. I straightforward ...
1
vote
0answers
120 views

ComBat batch correction: understanding the model

A collaborator of mine is using ComBat for some RNA-seq data. I would like to understand what it's doing, and I have a specific question about the structure of the model. Equation 2.1 of the paper ...
0
votes
0answers
65 views

How to use combat in order to remove batch effects?

I have RNA seq data and I need to use combat to remove the batch effects. Somehow when I run it, it isnt actually doing anything. The code: ...