diff rmarkdown_deseq2_count_matrix.Rmd @ 0:c1f718dd6c7a draft

planemo upload

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/rmarkdown_deseq2_count_matrix.Rmd	Sat Dec 30 00:25:38 2017 -0500
@@ -0,0 +1,39 @@
+---
+title: 'DESeq2 analysis'
+output:
+    html_document:
+      number_sections: true
+      toc: true
+      theme: cosmo
+      highlight: tango
+---
+
+```{r setup, include=FALSE, warning=FALSE, message=FALSE}
+knitr::opts_chunk$set(
+  echo = opt$echo,
+  error = TRUE
+)
+```
+
+
+## User input
+
+```{r 'user input'}
+df = data.frame(name = names(opt)[-1],
+                value = unlist(opt))
+df
+```
+
+
+## Count Matrix
+
+```{r 'count matrix'}
+count_data = read.table(opt$count_data)
+head(count_data, 10)
+```
+
+```{r 'ste[ 2'}
+
+```
+
+