log2 RSEM data

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4.5 years ago

pbm11 • 0

Hello All

I am analyzing 1 RNAseq data which has been deposited in GEO as the RSEM upper quantile normalized data. I used limma-voom for DEGs between groups. The error which I have got was:

[1] "Extracting counts"
Error in cpm.default(data$counts) : 
  library sizes should be finite and non-negative
Calls: cpm -> cpm.default
Execution halted

Can anyone suggest me how to handle this data?

Thanks in advance

RNA-Seq galaxy GEO • 1.5k views

ADD COMMENT • link updated 4.5 years ago by Ram 44k • written 4.5 years ago by pbm11 • 0

1

Entering edit mode

If you're running this on a galaxy server, a better place to ask questions would be https://help.galaxyproject.org/

Also, please use the formatting bar (especially the code option) to present your post better. You can use backticks for inline code (`text` becomes text), or select a chunk of text and use the highlighted button to format it as a code block. I've done it for you this time.
code_formatting

ADD REPLY • link 4.5 years ago by Ram 44k

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