Re: [galaxy-dev] cuffdiff output: FPKM value zero

2012-09-10 Thread graham etherington (TSL)
Hi Suzan, The problem here is that there's an absence of data for one of the genes you want to compare, so one can't really assign any significance to that particular gene or transcript. This would require inventing a singificance value where if a gene is highly expressed in one sample, but not mea

[galaxy-dev] cuffdiff output: FPKM value zero

2012-09-07 Thread suzan katie
Hello everyone, I am comparing two samples (control and treated) paired end RNA Seq data. In the cuffdiff output I have noticed that few genes have zero FPKM value in one sample and other sample has significant FPKM value. I want to identify uniquely expressed genes identified only in one sample (