A quick guide for developing effective bioinformatics programming skills.
作者信息
Dudley Joel T, Butte Atul J
机构信息
Program in Biomedical Informatics, Stanford University School of Medicine, Stanford, California, USA.
出版信息
PLoS Comput Biol. 2009 Dec;5(12):e1000589. doi: 10.1371/journal.pcbi.1000589. Epub 2009 Dec 24.
Abstract
摘要
相似文献
1
A quick guide for developing effective bioinformatics programming skills.培养有效生物信息学编程技能的快速指南。
PLoS Comput Biol. 2009 Dec;5(12):e1000589. doi: 10.1371/journal.pcbi.1000589. Epub 2009 Dec 24.
2
Unix survival guide.Unix生存指南。
Curr Protoc Bioinformatics. 2007 Jan;Appendix 1:Appendix 1C. doi: 10.1002/0471250953.bia01cs16.
3
Bioinformatics project streamlines data exchange.生物信息学项目简化了数据交换。
J Natl Cancer Inst. 2004 Apr 21;96(8):580. doi: 10.1093/jnci/96.8.580.
4
Biotool2Web: creating simple Web interfaces for bioinformatics applications.生物工具2网络：为生物信息学应用创建简单的网络界面。
Appl Bioinformatics. 2006;5(1):63-6. doi: 10.2165/00822942-200605010-00009.
5
Developing a modern web interface for database-driven bioinformatics tools.为数据库驱动的生物信息学工具开发一个现代的网络界面。
IEEE Eng Med Biol Mag. 2007 Mar-Apr;26(2):96-8. doi: 10.1109/memb.2007.335598.
6
A library of efficient bioinformatics algorithms.一个高效生物信息学算法库。
Appl Bioinformatics. 2003;2(2):117-21.
7
Pise: software for building bioinformatics webs.Pise：用于构建生物信息学网站的软件。
Brief Bioinform. 2002 Dec;3(4):405-9. doi: 10.1093/bib/3.4.405.
8
An object-oriented programming system for the integration of internet-based bioinformatics resources.一种用于整合基于互联网的生物信息学资源的面向对象编程系统。
Appl Bioinformatics. 2006;5(1):29-39. doi: 10.2165/00822942-200605010-00004.
9
A quick guide to teaching R programming to computational biology students.向计算生物学专业学生教授R编程的快速指南。
PLoS Comput Biol. 2009 Aug;5(8):e1000482. doi: 10.1371/journal.pcbi.1000482. Epub 2009 Aug 28.
10
GLAD: a system for developing and deploying large-scale bioinformatics grid.GLAD：一个用于开发和部署大规模生物信息学网格的系统。
Bioinformatics. 2005 Mar;21(6):794-802. doi: 10.1093/bioinformatics/bti034. Epub 2004 Sep 23.
引用本文的文献
1
Galaxy as a gateway to bioinformatics: Multi-Interface Galaxy Hands-on Training Suite (MIGHTS) for scRNA-seq.作为生物信息学入门的Galaxy：用于单细胞RNA测序的多界面Galaxy实践培训套件（MIGHTS）
Gigascience. 2025 Jan 6;14. doi: 10.1093/gigascience/giae107.
2
A mentorship and incubation program using project-based learning to build a professional bioinformatics pipeline in Kenya.使用基于项目的学习来在肯尼亚建立专业生物信息学管道的指导和孵化计划。
PLoS Comput Biol. 2023 Mar 2;19(3):e1010904. doi: 10.1371/journal.pcbi.1010904. eCollection 2023 Mar.
3
Bioinformatics-Based Activities in High School: Fostering Students' Literacy, Interest, and Attitudes on Gene Regulation, Genomics, and Evolution.高中阶段基于生物信息学的活动：培养学生在基因调控、基因组学和进化方面的素养、兴趣及态度。
Front Microbiol. 2020 Oct 14;11:578099. doi: 10.3389/fmicb.2020.578099. eCollection 2020.
4
Designing and running an advanced Bioinformatics and genome analyses course in Tunisia.在突尼斯设计并开设高级生物信息学和基因组分析课程。
PLoS Comput Biol. 2019 Jan 28;15(1):e1006373. doi: 10.1371/journal.pcbi.1006373. eCollection 2019 Jan.
5
A high-throughput and open-source platform for embryo phenomics.高通量且开源的胚胎表型组学平台。
PLoS Biol. 2018 Dec 13;16(12):e3000074. doi: 10.1371/journal.pbio.3000074. eCollection 2018 Dec.
6
BpWrapper: BioPerl-based sequence and tree utilities for rapid prototyping of bioinformatics pipelines.BpWrapper：基于 BioPerl 的序列和树实用程序，用于快速原型化生物信息学管道。
BMC Bioinformatics. 2018 Mar 2;19(1):76. doi: 10.1186/s12859-018-2074-9.
7
PlantCV v2: Image analysis software for high-throughput plant phenotyping.PlantCV v2：用于高通量植物表型分析的图像分析软件。
PeerJ. 2017 Dec 1;5:e4088. doi: 10.7717/peerj.4088. eCollection 2017.
8
Bioinformatic training needs at a health sciences campus.健康科学园区的生物信息学培训需求。
PLoS One. 2017 Jun 14;12(6):e0179581. doi: 10.1371/journal.pone.0179581. eCollection 2017.
9
Top considerations for creating bioinformatics software documentation.生物信息学软件文档编写的首要考虑因素。
Brief Bioinform. 2018 Jul 20;19(4):693-699. doi: 10.1093/bib/bbw134.
10
An Introduction to Programming for Bioscientists: A Python-Based Primer.生物科学家编程入门：基于Python的基础教程。
PLoS Comput Biol. 2016 Jun 7;12(6):e1004867. doi: 10.1371/journal.pcbi.1004867. eCollection 2016 Jun.
本文引用的文献
1
An introduction to scripting in Ruby for biologists.面向生物学家的Ruby脚本编程入门。
BMC Bioinformatics. 2009 Jul 16;10:221. doi: 10.1186/1471-2105-10-221.
2
BioPortal: ontologies and integrated data resources at the click of a mouse.生物门户：一键点击即可获取本体和集成数据资源。
Nucleic Acids Res. 2009 Jul;37(Web Server issue):W170-3. doi: 10.1093/nar/gkp440. Epub 2009 May 29.
3
CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units.CUDASW++：针对支持CUDA的图形处理单元优化史密斯-沃特曼序列数据库搜索
BMC Res Notes. 2009 May 6;2:73. doi: 10.1186/1756-0500-2-73.
4
Explicit Design of FPGA-Based Coprocessors for Short-Range Force Computations in Molecular Dynamics Simulations.用于分子动力学模拟中短程力计算的基于现场可编程门阵列（FPGA）的协处理器的显式设计
Parallel Comput. 2008 May;34(4-5):261-277. doi: 10.1016/j.parco.2008.01.007.
5
CloudBurst: highly sensitive read mapping with MapReduce.CloudBurst：使用MapReduce进行高灵敏度读段比对
Bioinformatics. 2009 Jun 1;25(11):1363-9. doi: 10.1093/bioinformatics/btp236. Epub 2009 Apr 8.
6
Biopython: freely available Python tools for computational molecular biology and bioinformatics.Biopython：用于计算分子生物学和生物信息学的免费可用Python工具。
Bioinformatics. 2009 Jun 1;25(11):1422-3. doi: 10.1093/bioinformatics/btp163. Epub 2009 Mar 20.
7
Accelerating molecular dynamic simulation on graphics processing units.在图形处理单元上加速分子动力学模拟
J Comput Chem. 2009 Apr 30;30(6):864-72. doi: 10.1002/jcc.21209.
8
GeneChaser: identifying all biological and clinical conditions in which genes of interest are differentially expressed.基因追踪器：识别所有感兴趣基因差异表达的生物学和临床状况。
BMC Bioinformatics. 2008 Dec 18;9:548. doi: 10.1186/1471-2105-9-548.
9
Constructing computational pipelines.构建计算管道。
Methods Mol Biol. 2008;453:451-70. doi: 10.1007/978-1-60327-429-6_24.
10
BioJava: an open-source framework for bioinformatics.BioJava：一个用于生物信息学的开源框架。
Bioinformatics. 2008 Sep 15;24(18):2096-7. doi: 10.1093/bioinformatics/btn397. Epub 2008 Aug 8.
Zotero 插件