See the R Markdown Cheatsheet for more capabilities as well as for a review of what was discussed above. Note that these headers must be on their own lines in your R Markdown file to be recognized as headers and not just the #, #, etc. Using # creates a sub header, # creates a sub-sub header, etc. To start a header, use # and type your header text next to it. Otherwise, you must provide the whole file path (or use relative path names if you are familar with them).Īlong with usual text, you can also specify headers within this space. If the image is in the same folder as the Markdown file, you can just include the file name. To add images, use ! optional caption text where specifies the image caption (which can be empty) and () holds the file name for the image. Note that when adding in links to webpages, if you are creating a document in HTML format, you will have to add self_contained: no to your Prelude below html_document: default. To mark a webpage link, use / linked phrase where “linked phrase” is the text that appears in the document and () holds the actual URL. To add a subscript, use _ and to add a superscript use ^. Surrounding your text with ** ** bolds the text, and with * * italicizes the text. You can also format the text which appears in this space. This combination of R code, its results, and the Word document-like capabilities is what allows you to create a comprehensive report for your analysis within a single file. This space largely works like a Word document you can place text, images, tables, etc. The white space outside of your Prelude is where you place the non-R code components of your document. RMD files which created these tutorials for further detail. You can override these global options for specific chunks but setting the override in the chunk(s) of interest as discussed above. Where the options of interest are placed as argument separated by commas. Note that to specify options for all chunks in your R Markdown (i.e., “global options”), include the following command in a separate chunk at the top of the document (but below the Prelude): We will discuss the R Markdown tab later. To obtain everything that the code in the chunk produces (output, warnings, errors, etc.), make sure to select the Console tab in the lower-left hand window, which contains the usual R console. Note that when you run a chunk, its output will be shown right below it. The last option runs only the current chunk, which is necessary to view the output of the chunk and/or verify the code within it is operating correctly as you create your R Markdown document. The next option has R run all of the chunks above this chunk, which may be necessary when this chunk’s code depends on the chunks above it. You can also specify a number of options for your chunk inside. Note that each chunk must have a different name or else you will receieve an error when the R Markdown file is compiled. In the above example, “name” was used as the chunk’s name. First, you must name your chunk, which allows you to easily refer to what the code in the chunk does and to facilitate the organization of your document. You can see that the chunk is shaded in gray and adds in a few icons on the upper right of this shaded space. 11.3.1 Setting the Seed: Reproducibility in Simulation Studies.11.2.1 Example: Regression Analysis as a Function Call.11.1.1 Example 1: Running many regression models.9.4 Creating your document from the R Markdown file.9.3 Understanding the R Markdown editor.9 Documenting your results with R Markdown.8.4.3 Interpreting results: time dependent covariates.8.4.2 Example: Mullen composite and Visit.8.3.3 Example 2: Categorical Covariates.8.2.5 Example 2: Categorical predictors.7.2.2 Accounting for estimation variance and hypothesis testing.7.2.1 Parameter Estimation: Mean, Median, tutorial, Quantiles.6.2 Creating Basic Tables: table() and xtabs().4.2.6 Editing factor variables: recode() and relevel().4.2.3 Spread, Gather, Separate and Unite.2.3 R and RStudio: What is the difference?.
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