Programming for Biologists培训

课程编码

progbio

课程时长

28 小时 通常来说是4天,包括中间休息。

要求

Basic biological knowledge about protein, RNA and DNA sequences.

课程概览

这是一门实践课程,它说明了为什么编程是解决生物问题的有力工具。在课程中,学员将学习Python编程语言,这种语言被广泛认为既强大又易于使用。本课程可能被视为生物信息学如何改善生物学家生活的一个示范。

该课程的设计和目标是没有计算机科学背景的人,他们想要学习编程。

本课程适合:

  • 处理生物数据的研究人员。
  • 希望学习如何自动化日常任务和分析数据的科学家。
  • 希望了解编程如何改进工作流程和执行项目的经理。

在课程结束时,参与者将能够编写简短的程序,这将使他们能够操纵,分析和处理生物数据并以图形格式呈现结果。

Machine Translated

课程大纲

Introduction to the Python programming language

  • Why Python?
  • Using Python to deal with biological data
  • Working with the iPython shell
  • Your first programme
  • Writing Python scripts
  • Importing modules

Working with protein and RNA/DNA sequences

  • Finding motives
  • Transcription and translation in silico
  • Handling sequence alignments

Parsing data in different biological formats

  • Parsing FASTA
  • Data format conversions

Running biological analyses

  • BLAST
  • Accessing biological web services

Dealing with biological 3D structures using Python

Python facilitates statistical analysis

Visualizing data

  • Creating bar and scatter plots
  • Calculating an Area Under Curve (AUC)

Working with .xls and .csv files

  • Importing data from and exporting to MS Excel / OpenOffice Calc
  • Writing .xls and .csv files

Using Python to create an automated data processing pipeline

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