Introduction to R and Rstudio

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Four panes of RStudio, showing the editor, console, environment and plots panel

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A cross in the margins where a line of code is syntatically incorrect

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Mousing over the cross reveals the message "expected , after expression" and "unmatched opening bracket (

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A function takes as input (x,y), does some stuff, and outputs z
A black box function

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Fail fast Image credit

Reading in data

Tidy data

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Pivoting longer

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Pivoting wider

Data wrangling

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dplyr::mutate() image credit

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dplyr::filter() image credit

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dplyr::select() image credit

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dplyr::arrange() image credit Here I sort for the hottest days, using desc() to get the maximum temperatures in descending order.

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left join

Data visualization

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Bioconductor and other bioinformatics packages

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Bioconductor logo

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Using R markdown for notebooks and documents

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Button for knitting documents

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Button for knitting noteooks

Version control with git

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Git commit timeline Image credit

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Git branches Image credit

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Global options

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A new repo on github

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Git pane

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Three sections of a git project

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A staged file

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Git diff

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Git commit You should get a pop-up telling you the commit was successful.

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Git commit success

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Working with remotes

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Pulling and pushing

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A failed push

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A failed push

Case study

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