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Description of Individual Course Units

Course Unit Code Course Unit Title Type Of Course D U L ECTS MBG 5035 R PROGRAMMING FOR BIOINFORMATICS ELECTIVE 3 0 0 9

Offered By

Molecular Biology and Genetics

Level of Course Unit

Second Cycle Programmes (Master's Degree)

Course Coordinator

ASSOCIATE PROFESSOR GÖKHAN KARAKÜLAH

Offered to

Molecular Biology and Genetics Molecular Biology and Genetics

Course Objective

This course aims to to provide students with basics of R statistical computation environment, and scripting and programming skills for biological data analysis.

Learning Outcomes of the Course Unit

1   To be able to work with R language 2   To be able to develop R scripts 3   To be able to use R programming language for biological data analysis 4   To be able to access programmatically public databases to extract useful information with R programming language 5   To be able to develop analysis pipelines for biological data analysis with R

Mode of Delivery

Face -to- Face

Prerequisites and Co-requisites

None

Recomended Optional Programme Components

None

Course Contents

Week Subject Description 1 Introduction to R language 2 Input and Output 3 Data Structures 4 Data transformations 5 Strings and dates 6 Functions - I 7 Functions - II 8 R packages 9 MIDTERM 10 Data technologies 11 Graphics - I 12 Graphics - II 13 Using R for bioinformatics data analysis - I 14 Using R for bioinformatics data analysis - II 15 Using R for bioinformatics data analysis - III 16 Assignment Presentations

Recomended or Required Reading

Textbook(s): 1. Programming with R for bioinformatics. Robert Gentleman, CRC Press 2. R Cookbook: Proven Recipes for Data Analysis, Statistics, and Graphics. Paul Teetor, O'Reilly Media, Inc. 2011

Planned Learning Activities and Teaching Methods

Oral presentation, literature search and discussion

Assessment Methods

SORTING NUMBER SHORT CODE LONG CODE FORMULA 1 ASG ASSIGNMENT 2 MTE MIDTERM EXAM 3 FIN FINAL EXAM 4 FCG FINAL COURSE GRADE ASG * 0.20 + MTE * 0.30 + FIN * 0.50 5 RST RESIT 6 FCGR FINAL COURSE GRADE (RESIT) ASG * 0.20 + MTE * 0.30 + RST * 0.50 *** Resit Exam is Not Administered in Institutions Where Resit is not Applicable.

Further Notes About Assessment Methods

None

Assessment Criteria

To be announced.

Language of Instruction

English

Course Policies and Rules

To be announced.

Contact Details for the Lecturer(s)

gokhan.karakulah@deu.edu.tr

Office Hours

To be announced.

Work Placement(s)

None

Workload Calculation

Activities Number Time (hours) Total Work Load (hours) Lectures 15 2 30 Tutorials 15 1 15 Preparation before/after weekly lectures 15 6 90 Preparation for Mid-term Exam 1 15 15 Preparation for Final Exam 1 25 25 Preparing Individual Assignments 1 15 15 Preparing Group Assignments 1 25 25 Final 1 2 2 Mid-term 1 2 2 TOTAL WORKLOAD (hours) 219

Contribution of Learning Outcomes to Programme Outcomes

PO/LO PO.1 PO.2 PO.3 PO.4 PO.5 PO.6 PO.7 PO.8 LO.1 3 LO.2 3 LO.3 3 LO.4 3 LO.5 3