CSHL Programming for Biology Course

CSHL 生物学编程课程

• 批准号: 10458016
• 负责人: DAVID J. STEWART
• 金额: $ 9.11万
• 依托单位: COLD SPRING HARBOR LABORATORY
• 依托单位国家: 美国
• 财政年份: 2014
• 资助国家: 美国
• 起止时间: 2014-09-01 至 2026-07-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10458016
• 关键词: Address; Area; Back; Bioinformatics; Biological; Biology; Code; Complex; Complex Analysis; Computer software; Computers; Computing Methodologies; Custom; DNA Resequencing; Data; Data Analyses; Data Set; Dedications; Distributed Databases; Educational process of instructing; Educational workshop; Ensure; Environment; Exercise; Experimental Designs; Explosion; Exposure to; Faculty; Floods; Genetic Population Study; Genome; Genomics; Genotype; Goals; Home; Human; Individual; Institution; Investigation; Knowledge; Laboratories; Laboratory Study; Language; Learning; Libraries; Life; Methodology; Methods; Mining; Modernization; Molecular Biology; Population Genetics; Postdoctoral Fellow; Problem Sets; Professional Education; Programming Languages; Published Comment; Pythons; Research; Research Personnel; Research Training; Scientist; Sequence Alignment; Series; Software Engineering; Students; System; Techniques; Technology; Theoretical Biology; Thinking; Time; Training; Training Programs; Transcript; Variant; Work; analysis pipeline; bioinformatics tool; biological research; career; comparative genomics; computational pipelines; computer program; data complexity; data exchange; data format; data management; data mining; database schema; deep sequencing; design; experimental analysis; experimental study; graduate school; graduate student; instructor; laboratory curriculum; large datasets; lecturer; lectures; model organism; next generation; petabyte; programs; protein structure; scientific computing; skills; success; synergism; tool; transcriptomics; web-based tool

ABSTRACT PROGRAMMING FOR BIOLOGY 2020 – 2024 The goal of the Cold Spring Harbor Laboratory Course in Programming for Biology is to provide biologists with the advanced knowledge and programming tools they need to deal with the genomic information explosion. Complementary to training in web tools such as BLAST, this course teaches researchers how to manage, analyze and display large data sets by creating dedicated programs that combine existing and custom tools and platforms. This 16 day course begins with an intensive training in Python programming, including object-oriented programming and the BioPython library. The second week introduces essential bioinformatics analysis tools and methods, each accompanied by appropriate programming exercises. We emphasize the design and implementation of complex analysis pipelines that directly address a biologist's research questions using practical software engineering and scientific computing methods. The course combines formal lectures with extensive hands-on laboratories in which students solve a series of computational problem sets drawn from common scenarios in biology research and data management. In a three-day final project that solidifies the course's teachings, students pose real-life problems using their own data and work in groups with faculty to solve them.

摘要 生物学程序设计 2020 – 2024 冷泉港生物学编程实验室课程的目标是 为生物学家提供所需的先进知识和编程工具， 处理基因组信息爆炸。对网络工具培训的补充 如BLAST，本课程教授研究人员如何管理、分析和显示 通过创建结合联合收割机现有工具和定制工具的专用程序， 和平台。这个为期16天的课程从Python的强化培训开始 编程，包括面向对象编程和BioPython库。的 第二周介绍基本的生物信息学分析工具和方法，每个 并辅之以适当的编程练习。我们强调设计， 实现直接针对生物学家研究的复杂分析管道 使用实用的软件工程和科学计算方法的问题。的 课程结合了正式的讲座和广泛的动手实验室，学生 解决一系列来自生物学中常见场景的计算问题集 研究和数据管理。在为期三天的期末项目中， 教学，学生提出现实生活中的问题，使用自己的数据和工作组与 能力来解决它们。