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limma dose-response lincs tempO-seq high-throughput transcriptomics

updated 6.9 years ago by Gordon Smyth 51k • written 6.9 years ago by Pekka Kohonen ▴ 190

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Comment: In the sesame package, what does the estimate output mean from testEnrichment() by ramiro.barrantes ▴ 10

Thank you very much for this! Makes sense. Still so much to learn about this.

Comment: Rsubread alignment crashes at 35%, valgrind indicates invalid writes by Yang Liao ▴ 440

Thank you for the additional information! We are currently developing a significantly improved version of `Sublong`. The older version may …

Answer: object 'hdac_targets' not found by James W. MacDonald 67k

I believe you missed some steps: ``` ## ----trTargets------------------------------------------------------------- tr_targets <- subse…

Answer: KEGGgraph result difference by alex.pico ▴ 20

I'm not surprised that this fails. Not all GraphNELs nor igraphs are the same, so these chains of conversions are fraught with peril. Assu…

Answer: In the sesame package, what does the estimate output mean from testEnrichment() by James W. MacDonald 67k

It's right there in the output (`Log2(OR)`). It's doing a Fisher's exact test, which returns an odds ratio, and the output is the log odds …

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Answer: Cannabis and KEGGgraph

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