Data Analysis and Visualization with R for Genomics: All Images

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Data Analysis and Visualization with R for Genomics

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Data Analysis and Visualization with R for Genomics

Introducing R and RStudio IDE

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rstudio default session

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rstudio default session

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rstudio default session

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rstudio default session

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rstudio default session

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rstudio default session

R Basics

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RStudio script warning

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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RStudio data frame view

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RStudio import menu

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RStudio import screen

Using packages from Bioconductor

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screenshot of bioconductor homepage

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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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Getting help with R

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rstudio default session