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Forum: RNA Sequencing 10-08-2013, 04:21 PM
Replies: 4
Views: 2,125
Posted By ericfit
help! cannot find any deferentially expressed genes

I have two groups, dose low vs dose high. # of dose high = 25, # of dose low = 51.

I used DESeq for the analysis. As the manual suggested, I have a quite large number of replicates, so for...
Forum: Bioinformatics 08-14-2013, 06:56 AM
Replies: 3
Views: 1,352
Posted By ericfit
Thank you for reply. I have 10 samples in...

Thank you for reply.
I have 10 samples in treatment and 12 samples in untreatment group. In treatment, I have 5 single and 5 pair-ended samples. In untreatment, I have 8 single and 3 pair-ended...
Forum: Bioinformatics 08-13-2013, 10:29 PM
Replies: 3
Views: 1,352
Posted By ericfit
Can I put single and pair-ended RNAseq data together in DESeq analysis

I have RNA-seq data from Illumina GA (single-ended)and Hiseq (pair-ended). Just wonder if I could put them together in differential gene expression analysis. I know pair-end is much better than...
Forum: Bioinformatics 01-21-2011, 08:14 PM
Replies: 1
Views: 1,486
Posted By ericfit
Any software for snp calling other than MAQ?

Used MAQ, but wanna compare the results from different software. any suggestion? thx
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