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how to define different batches in DESeq2 in Galaxy

Dear all,

I have a RNASeq data set including tumor and healthy samples. However they have been collected from different laboratories.

I want to know how should I define different laboratories as groups when using DESeq2.

I have already performed this in R, however I want to do this in Galaxy this time.

Any comment appreciated

Nazanin

rna-seq deseq2 batch effect removal
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updated by Biostar Biostar • written by nazaninhoseinkhan nazaninhoseinkhan

1 answer

Glad you found the solution.

As a note, Galaxy Biostar focuses on using Galaxy.

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written by ra • ra

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