MiCM Data Wrangling Workshop

Sean Nesdoly
Data Wrangling Workshop, Winter 2021
McGill initiative in Computational Medicine
2021-04-15

This repository contains the material for the 'Data Wrangling' workshop given as part of the McGill initiative in Computational Medicine's winter 2021 workshop series. The content is summarized as follows, listed by folder:

• docs : Workshop PDF handout, containing hands-on lecture material with inline code. Generated by exporting org-mode plaintext to LaTeX via pdflatex.

• src : R and Julia source code.

• data : Input datasets ingested by the code in src.

  • data/HumanGeneLocations.tsv: human gene information taken from the UCSC Genome Browser. Chromosome location; transcription start & end sites; gene name.

  • data/HumanGeneProbeLocations.csv: human gene probe location information (Affymetrix GeneChips) for use in DNA microarray gene expression experiments. Probe name, target gene, chromosome location, (start) site 1, (stop) site 2.

• out : Output data; generated by executing the code in src on the input data in data.