Introducing R

R Basics

Introduction to the example dataset and file type

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variant calling workflow. Sequence reads (FASTQ files), Quality control (FASTQ files), Alignment to Genome (SAM/BAM files), Alignment cleanup (BAM file ready for variant calling), Variant Calling (VCF file)

R Basics continued - factors and data frames

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Using packages from Bioconductor

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screenshot of bioconductor search

Data Wrangling and Analyses with Tidyverse

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rstudio default session

Data Visualization with ggplot2

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Line plot enclosed in hexagon shape with ggplot2 typed beneath and www.rstudio.com at the bottom.

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Getting help with R

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rstudio default session