Question: One-sided p-value from DESeq2
0
gravatar for t.kuilman
13 months ago by
t.kuilman140
Netherlands
t.kuilman140 wrote:

For downstream analysis using a modified version of Robust Rank Aggregation (alpha-RRA; Li, et al. Genome Biology 2014), I would like to obtain one-tailed p-values from a standard DESeq2 analysis using a Wald test (rather than the two-tailed p-values that are represented in a 'DESeqResults' object). Can this be done from a 'DESeqDataSet' or a 'DESeqResults' object using DESeq2, and if so what steps should I take to do that?

Thanks, Thomas

ADD COMMENTlink modified 13 months ago by Michael Love25k • written 13 months ago by t.kuilman140
Answer: One-sided p-value from DESeq2
2
gravatar for Michael Love
13 months ago by
Michael Love25k
United States
Michael Love25k wrote:

See the vignette section on threshold tests. You would set lfcThreshold to 0 and specify the alternative as less than or greater than.

ADD COMMENTlink written 13 months ago by Michael Love25k

Fantastic, that's right what I need. Thanks for your quick reply; I should have spotted the altHypothesis argument of the results() function but apparently read past that.

ADD REPLYlink written 13 months ago by t.kuilman140
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 212 users visited in the last hour