Mercurial > repos > mingchen0919 > aurora_deseq2_site
annotate DESeq_05.Rmd @ 0:6f94b4b9de44 draft
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| author | mingchen0919 |
|---|---|
| date | Tue, 27 Feb 2018 23:57:53 -0500 |
| parents | |
| children |
| rev | line source |
|---|---|
| 0 | 1 --- |
| 2 output: html_document | |
| 3 --- | |
| 4 | |
| 5 ```{r setup, include=FALSE, warning=FALSE, message=FALSE} | |
| 6 knitr::opts_chunk$set( | |
| 7 echo = as.logical(opt$X_e), | |
| 8 error = TRUE | |
| 9 ) | |
| 10 ``` | |
| 11 | |
| 12 | |
| 13 # Differential expression analysis | |
| 14 | |
| 15 ```{r} | |
| 16 dds <- DESeq(dds) | |
| 17 ``` | |
| 18 | |
| 19 ```{r echo=FALSE} | |
| 20 # save useful objects. | |
| 21 save(dds, rld, sample_table, sampleDists, zz, file=opt$X_w) | |
| 22 ``` | |
| 23 |