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Dear All,
I'm currently using GalaxyProject website's RNA sequencing tools to do my RNA sequencing analyses. However I seem to keep getting the same error messages. I'm unsure what is the problem. Could any of you kindly advice?
I've attached a printscreen of the error which appears at the Cuffdiff stage.
Can I also check with you, for the Cuffdiff stage, do I use "Classic-fpkm" for Library Normalization Method and "per condition" for Dispersion Estimation Method?
The strains I have are:
1. E.coli (3 replicates)
2. E.coli with genes inactivated (3 replicates)
3. E.coli with additional genes introduced and expressing (3 replicates)
Therefore, I've entered 9 individual Cufflink files at the Cuffdiff stage (3 files per condition), is this correct?
Or am I supposed to use Cuffmerge first before Cuffdiff, so I only upload 3 files (1 file per condition) at the Cuffdiff stage?
Thank you. By the way, Happy New Year!!!
I'm currently using GalaxyProject website's RNA sequencing tools to do my RNA sequencing analyses. However I seem to keep getting the same error messages. I'm unsure what is the problem. Could any of you kindly advice?
I've attached a printscreen of the error which appears at the Cuffdiff stage.
Can I also check with you, for the Cuffdiff stage, do I use "Classic-fpkm" for Library Normalization Method and "per condition" for Dispersion Estimation Method?
The strains I have are:
1. E.coli (3 replicates)
2. E.coli with genes inactivated (3 replicates)
3. E.coli with additional genes introduced and expressing (3 replicates)
Therefore, I've entered 9 individual Cufflink files at the Cuffdiff stage (3 files per condition), is this correct?
Or am I supposed to use Cuffmerge first before Cuffdiff, so I only upload 3 files (1 file per condition) at the Cuffdiff stage?
Thank you. By the way, Happy New Year!!!