One of the features I like very much in Sweave is the option to have \SweaveInput{} of separate Sweave files to have a more "modular" report and just be able to comment out parts of the report that I do not want to be generated with a single #\SweaveInput{part_x} rather than having to comment in or out entire blocks of code.
Recently I decided to move to R Markdown for multiple reasons being mainly practicality, the option of interactive (Shiny) integration in the report and the fact that I do not really need the extensive formatting options of LaTeX.
I found that technically pandoc is able to combine multiple Rmd files into one html output by just concatenating them but it would be nice if this behaviour could be called from a "master" Rmd file.
Any answer would be greatly appreciated even if it is just "go back to Sweave, it is not possible in Markdown".
I am using R 3.1.1 for Windows and Linux as well as Rstudio 0.98.1056 and Rstudio server 0.98.983.
Use something like this in the main document:
```{r child="CapsuleRInit.Rmd"}
```
```{r child="CapsuleTitle.Rmd", eval=TRUE}
```
```{r child="CapsuleBaseline.Rmd", eval=TRUE}
```
Use eval=FALSE to skip one child.
For RStudio users: you can define a main document for latex output, but this does not work for RMD documents, so you always have to switch to the main document for processing. Please support my feature request to RStudio; I tried already twice, but is seems to me that too few people use child docs to put it higher in the priority list.