NCBI Entrez Programming Utilities (E-utilities) 教程收藏


近来发现了NCBI的E-utilities软件,不可思议的程序。实现自动化的大批量的从Entrez数据库下载数据。并且提供了几种常用的语言以供选择,像Perl, Python, Java, 和 C++等。真是太强大了。也挺复杂的。先收藏教程,再慢慢学习吧。
E-utilities:automate search and retrieval operations across the entire suite of Entrez databases.

Course Objectives
During the course, participants will learn how to do the following:

  • Post E-utility calls using standard URLs in Perl and using SOAP in Visual C#
  • Design and execute complex searches across the 35 Entrez databases
  • Implement data pipelines for genomic, proteomic, or microarray analysis
  • Create automated searches to keep local databases current
  • Create and download customized datasets
  • Seamlessly combine local data with NCBI data
  • Develop a focused interface to NCBI data

教程一:http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=coursework&part=eutils

教程二:http://www.ncbi.nlm.nih.gov/Class/PowerTools/eutils/schedule.html

Course Schedule:

 Tuesday, January 29

Time Event Description
09:00 – 10:15 Lecture 1 Introduction to Entrez
10:15 – 10:30 Break  
10:30 – 12:30 Practical 1 Exploring Entrez Pipelines
12:30 – 13:30 Lunch Natcher Cafeteria
13:30 – 14:30 Lecture 2 Introduction to the E-utilities
14:30 – 15:00 Practical 2 Exploring the E-utilities with E-Bench
15:00 – 15:15 Break  
15:15 – 16:00 Lecture 3 The Four Basic Pipelines
16:00 – 17:00 Practical 3 Coding Basic Pipelines

 Wednesday, January 30

Time Event Description
09:00 – 11:15 Lecture/Practical 4 Complex Pipelines: Entrez Linking
11:15 – 11:30 Break  
11:30 – 12:30 Lecture/Practical 5 Accessing LinkOuts
12:30 – 13:30 Lunch Natcher Cafeteria
13:30 – 15:00 Lecture/Practical 6 ESearch Special Topics: Entrez Filtering
15:00 – 15:15 Break  
15:15 – 17:00 Lecture/Practical 7 ESearch Special Topics: Dates and Accessions

 Thursday, January 31

Time Event Description
09:00 – 12:30 Practical 8 Coding an Advanced E-utility Application
12:30 – 13:30 Lunch Natcher Cafeteria
13:30 – 14:30 Lecture 9 Introduction to the SOAP Interface
14:30 – 14:45 Break  
14:45 – 17:00 Practical 9 Using the E-utilities with SOAP

 Friday, February 1

Time Event Description
09:00 – 10:30 Discussion 1 Meet the Developers
10:30 – 10:45 Break  
10:45 – 11:15 Discussion 2 Usage Guidelines for the E-utilities
11:15 – 12:00 Tour Tour of NCBI
12:00 – 13:00 Lunch Natcher Cafeteria
13:00 – 17:00 Open Lab Individual Consultations

 

最新的说明文档:http://eutils.ncbi.nlm.nih.gov/entrez/query/static/eutils_help.html


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