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Notes on Computational Genomics with R
About the author
Questions and Issues
Edit and Contribute
Introduction
1.
Computational Genomics and R
1.1.
What can you do with R ?
2.
Quick Introduction to R
2.1.
The Setup
2.2.
Computations in R
2.3.
Data structures and types
2.4.
Reading and writing data
2.5.
Plotting in R
2.6.
Functions and control structures (for, if/else etc.)
3.
Genomic Intervals
3.1.
Operations on Genomic Intervals with GenomicRanges package
3.2.
Dealing with high-throughput sequencing reads
3.3.
Dealing with contiguous scores over the genome
4.
Sequence analysis
5.
Visualization
Visualization