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Lecturer(s)
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Bulah Chia-Hsiang Wu, MSc. Ph.D.
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Nguyen Petr, RNDr. Ph.D.
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Course content
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Lectures and practicals cover the following topics: 1) Introducing the Shell, basic commands 2) Files and directories 3) Pipes and filters 4) Loops 5) Shell scripts 6) Finding things 7) Introduction to R, basic operations 8) Data types and data structures (vector, matrix, data frame, list) 9) Data import and export, data manipulating and formatting 10) Installing packages, using built-in functions, getting help 11) Loops, custom functions 12) Graphs basics, ggplot2
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Learning activities and teaching methods
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unspecified
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Learning outcomes
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The course presents the basic computing tools needed to build automated and reproducible pipelines for biological data analysis, visualization and publication.
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Prerequisites
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unspecified
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Assessment methods and criteria
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unspecified
credit: attendance at practicals, final test (min. 50 %)
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Recommended literature
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Allesina S, Wilmes M (2019) Computing Skills for Biologists - A Toolbox. Princeton University Press.
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Haddock SHD, Dunn CW (2010) Practical Computing for Biologists. Sinauer Associates https://swcarpentry.github.io/shell-novice/ https://swcarpentry.github.io/r-novice-gapminder/.
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