I've got a bunch of RNAseq datasets from ENCODE and I'm looking to identify variables contributing to variance among my samples.

For example, is there any easy way to find out the precise date which each sample went through the sequencing?

  • $\begingroup$ What kind of data do you have? Do you have the count table or the original fastq files? Where did you get this files from (If you got it from someone could you ask him/her) ? $\endgroup$ – llrs Jun 28 '18 at 6:57
  • $\begingroup$ I downloaded them directly from the ENCODE website. I thought to ask here before e-mailing. $\endgroup$ – jaslibra Jun 28 '18 at 13:49
  • $\begingroup$ And why do you need the date? It is for batch finding? I don't know the metadata for the project but usually there documentation about how is this encoded $\endgroup$ – llrs Jun 28 '18 at 13:52
  • $\begingroup$ @Llopis: Yes, I'm looking to correct for variance associated with dates. Maybe I'm stretching it, but I'm really interested in parsing through the noise of the different datasets at all factor levels $\endgroup$ – jaslibra Jun 29 '18 at 4:12
  • $\begingroup$ Will you want to know which person did each part of the process? Or in which center, machine and lane it was done? I agree that this should be an objective, but I think it is unreasonable to ask this of this big projects, any way you can ask them. But I see there is a "Date released" filter value, so you can use that as a proxy $\endgroup$ – llrs Jun 29 '18 at 7:34

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