Question: How to merge read count of multiple sample in one fiel to be used for DESeq2 fold change study?
0
gravatar for Neu
21 months ago by
Neu10
India
Neu10 wrote:

Hi, I have read count of circRNA junctions obtained by analyzing RNA-Seq data. How can I merge these files to calculate fold change using DeSeq2?Some sample may contain junctions that are not detected in other sample or replicate analysis and I need to put zero in that condition. Any help will be appreciated. .

ADD COMMENTlink modified 21 months ago by gayatri2810 • written 21 months ago by Neu10
1

Have you tried full_join() from dplyr?

ADD REPLYlink written 21 months ago by Devon Ryan97k

DESeq2 has several features for importing data: did you give a look to them? You can find them here

ADD REPLYlink written 21 months ago by Fabio Marroni2.6k
0
gravatar for gayatri281
21 months ago by
gayatri2810
gayatri2810 wrote:

Hi Neu, Did you figure this out? I am looking for a solution to the same problem!! Thank you!

ADD COMMENTlink written 21 months ago by gayatri2810

Hi, I used ablebits-ultimate-suite-excel add-in to do this. Before doing this, I made a single table for the identical columns by merging all the sample result files and then sorted them.

ADD REPLYlink written 20 months ago by Neu10
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