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Old 11-22-2011, 07:23 AM   #1
feng
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Location: US

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Default statistical analysis

How to do statistical analysis on differentially expressed genes from RNA-seq?

Results as


genes Sample1 Sample2
xxxx 12 23
xxxx 155 30

Numbers stand for times of gene sequence.
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Old 11-23-2011, 01:28 AM   #2
Bukowski
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Quote:
Originally Posted by feng View Post
How to do statistical analysis on differentially expressed genes from RNA-seq?

Results as


genes Sample1 Sample2
xxxx 12 23
xxxx 155 30

Numbers stand for times of gene sequence.
Not much chance of statistical analysis with only two samples.

I think DESeq http://www-huber.embl.de/users/anders/DESeq/ has instructions for unreplicated conditions though. If you search the forums there are plenty of discussions on SeqAnswers about this topic.
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Old 11-23-2011, 02:02 AM   #3
ickou
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You can use "NOISeq-sim: no replicates"
http://bioinfo.cipf.es/noiseq/doku.php?id=tutorial
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