BT508 Bioinfomatics Software Development with Python

6 ECTS - 4-0 Duration (T+A)- . Semester- 4 National Credit

Information

Code BT508
Name Bioinfomatics Software Development with Python
Term 2022-2023 Academic Year
Semester . Semester
Duration (T+A) 4-0 (T-A) (17 Week)
ECTS 6 ECTS
National Credit 4 National Credit
Teaching Language Türkçe
Level Yüksek Lisans Dersi
Type Normal
Mode of study Yüz Yüze Öğretim
Catalog Information Coordinator Prof. Dr. ZEYNEL CEBECİ


Course Goal / Objective

This course aims to develop bioinformatics software with Python programming language.

Course Content

This course covers coding with Python programming language and bioinformatics software development.

Course Precondition

Programming knowledge and experience with one of the high-level programming languages, i.e, R, Fortran, C/C++ etc.

Resources

Bassi, S. (2016). Python for bioinformatics. Chapman and Hall/CRC. Model, M. L. (2009). Bioinformatics Programming Using Python: Practical Programming for Biological Data. O'Reilly Media, Inc.

Notes

Biopython Tutorial. URL https://www.tutorialspoint.com/biopython/index.htm


Course Learning Outcomes

Order Course Learning Outcomes
LO01 Learns coding with Python.
LO02 Codes software for bioinformatics.
LO03 Learns OOP essentials.
LO04 Learns debugging and fixing of the codes.


Relation with Program Learning Outcome

Order Type Program Learning Outcomes Level
PLO01 Bilgi - Kuramsal, Olgusal Based on the undergraduate level qualifications, develops and deepens the knowledge in the same or different field at the level of expertise and analyzes and interprets them using statistical methods. 4
PLO02 Beceriler - Bilişsel, Uygulamalı To identifiy the interdisciplinary interaction of the field and to solve use of the methods. 3
PLO03 Beceriler - Bilişsel, Uygulamalı Interpret the knowledge gained in the field by integrating the information from different disciplines and creates new information
PLO04 Yetkinlikler - Bağımsız Çalışabilme ve Sorumluluk Alabilme Yetkinliği Develops new strategic approaches for solving complex problems that are encountered in applications related to the field.
PLO05 Yetkinlikler - Öğrenme Yetkinliği To teach the social, scientific, cultural and ethical values during the collection, interpretation, implementation and announcement of the data related to the field. 3
PLO06 Yetkinlikler - İletişim ve Sosyal Yetkinlik To solve the problems encountered in the field and cominicate by using research methods. 3
PLO07 Yetkinlikler - Alana Özgü Yetkinlik To gain the ability to develop and deepen the knowledge in the field of biotechnology 2
PLO08 Yetkinlikler - Alana Özgü Yetkinlik Establishes functional interaction by using strategic decision-making processes in solving the problems encountered in the field.
PLO09 Yetkinlikler - Öğrenme Yetkinliği Knows the ethical rules to be considered while obtaining biotechnological products.
PLO10 Yetkinlikler - İletişim ve Sosyal Yetkinlik He / she defends his / her original opinions in discussing the subjects in his / her field and establishes an effective communication showing his / her competence in the field.


Week Plan

Week Topic Preparation Methods
1 Python fundamentals , installation and working environment Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
2 Data types Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
3 Variables and types of variables Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
4 Simple expressions Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
5 Advanced data types, Containers Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
6 Loops Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
7 Functions Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
8 Mid-Term Exam Preparation for the exam Ölçme Yöntemleri:
Ödev
9 Exceptions Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
10 Code organization Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
11 Input/Output files Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
12 Interacting with the other elements Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
13 Regular expressions Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
14 Introduction to functional programming Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
15 Introduction to object-oriented programming Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. Öğretim Yöntemleri:
Alıştırma ve Uygulama, Anlatım
16 Term Exams Preparation for the exam Ölçme Yöntemleri:
Ödev
17 Term Exams Preparation for the exam Ölçme Yöntemleri:
Ödev


Student Workload - ECTS

Works Number Time (Hour) Workload (Hour)
Course Related Works
Class Time (Exam weeks are excluded) 14 4 56
Out of Class Study (Preliminary Work, Practice) 14 4 56
Assesment Related Works
Homeworks, Projects, Others 0 0 0
Mid-term Exams (Written, Oral, etc.) 1 12 12
Final Exam 1 28 28
Total Workload (Hour) 152
Total Workload / 25 (h) 6,08
ECTS 6 ECTS

Update Time: 17.11.2022 11:05