User contributions
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Jump to navigationJump to search- 10:28, 24 September 2007 diff hist +4 MediaWiki:Sidebar
- 10:26, 24 September 2007 diff hist +12 MediaWiki:Sidebar
- 10:26, 24 September 2007 diff hist +47 MediaWiki:Sidebar
- 10:25, 24 September 2007 diff hist +1 MediaWiki:Gotaccount current
- 10:20, 24 September 2007 diff hist +68 N MediaWiki:Gotaccount New page: Create a new WormBaeWiki user account. Already have an account? $1.
- 10:19, 24 September 2007 diff hist 0 Request Account
- 10:18, 24 September 2007 diff hist +272 N Request Account New page: Due to ongoing problems with spam, write-access to the WormBase wiki is by request only. If you'd like to contribute to the Wiki, please email Todd Harris (harris@cshl.org). Please inclu...
- 10:16, 24 September 2007 diff hist +38 MediaWiki:Sidebar
- 10:11, 24 September 2007 diff hist +144 N MediaWiki:Sidebar New page: * navigation ** mainpage|mainpage ** User_Guide|User Guide ** FAQs|FAQs ** meetings|Meetings ** recentchanges-url|recentchanges ** helppage|help
- 09:53, 24 September 2007 diff hist -10 MediaWiki:Nologinlink
- 09:52, 24 September 2007 diff hist +28 N MediaWiki:Nologinlink New page: Create or request an account
- 03:30, 24 September 2007 diff hist -10 About the WormBase data model
- 03:30, 24 September 2007 diff hist +592 N About the WormBase data model New page: == Learning More about the '''<font color="black">Data</font>''' '''<font color="black">Model</font>''' == The '''<font color="black">data</font>''' '''<font color="black">model</font>'''...
- 03:28, 24 September 2007 diff hist +1,155 N Converting Coordinates between releases New page: = GFF coordinate conversion = A tool written in Perl for converting GFF files between the different releases of the C.elegans genome. The needed files are available [ftp://ftp.sanger.ac....
- 03:27, 24 September 2007 diff hist +5,809 N Linking To WormBase New page: It is easy to link to WormBase. You can link to HTML pages, text-only dumps, images, and XML pages. == Naming Conventions == All objects in WormBase have a '''name''' and a '''class'''. ...
- 03:25, 24 September 2007 diff hist +11,344 N Mining WormBase with Bio::DB::GFF New page: Mining WormBase with MySQL & PostgreSQL The BioPerl library provides a simple relational schema and database access layer for querying genomic features. This is the access method of c...
- 03:24, 24 September 2007 diff hist +676 N Mining AceDB/WormBase with AcePerl New page: WormBase can be queried from the command line using AcePerl. This allows you to write sophisticated Perl scripts to mine WormBase. For details, see the [http://stein.cshl.org/AcePerl/ AceP...
- 03:23, 24 September 2007 diff hist +1,304 N Data mining:WormMart:Example 1 new New page: === Example 1: List all synonyms for the following genes; bli-1, egl-43, lag-1 === * Start a new WormMart query: [http://dev.wormbase.org/biomart/martview [HERE]]. * Select the '''curren...
- 03:22, 24 September 2007 diff hist -2 Data mining:WormMart:Example 3 →Download the set of all RNAi experiments that resulted in an embryonic lethal (Emb) phenotype, and in which the target genes are classified as serine/threonine kinases.
- 03:21, 24 September 2007 diff hist -1 Data mining:WormMart:Example 3 →Download the set of all RNAi experiments that resulted in an embryonic lethal (Emb) phenotype, and in which the target genes are classified as serine/threonine kinases.
- 03:21, 24 September 2007 diff hist +1 Data mining:WormMart:Example 3 →Download the set of all RNAi experiments that resulted in an embryonic lethal (Emb) phenotype, and in which the target genes are classified as serine/threonine kinases.
- 03:20, 24 September 2007 diff hist +15,806 N Data mining:WormMart:Example 3 New page: === Download the set of all RNAi experiments that resulted in an embryonic lethal (Emb) phenotype, and in which the target genes are classified as serine/threonine kinases. === * Start a ...
- 03:19, 24 September 2007 diff hist +11,498 N Data mining:WormMart:Example 2 New page: === Example 2: From all genes in C.elegans that have an ortholog in C. briggsae, are located in chromosome III, have an observed larval lethal phenotype in an RNAi screen, and have annotat...
- 03:17, 24 September 2007 diff hist -4 Data mining:WormMart:Example 1 →Example 1: List all synonyms for the following genes; bli-1, egl-43, lag-1
- 03:16, 24 September 2007 diff hist +8,427 N Data mining:WormMart:Example 1 New page: === Example 1: List all synonyms for the following genes; bli-1, egl-43, lag-1 === * Start a new WormMart query: [http://www.wormbase.org/biomart/martview [HERE]]. * On the '''START''' p...
- 03:15, 24 September 2007 diff hist 0 Data mining:WormMart
- 03:15, 24 September 2007 diff hist +1,633 N Data mining:WormMart New page: == Introduction == WormMart (http://www.wormbase.org/BioMart/martview) provides easy and interactive access to data en masse. In particular, WormMart enables users to retrieve sequences a...
- 03:13, 24 September 2007 diff hist +805 N Data mining:AQL tutorial New page: AQL search [http://www.wormbase.org/db/searches/aql_query [1]] is strictly dependent on current database models: one must consult the models to construct a successful query. '''Documentat...
- 03:10, 24 September 2007 diff hist +5,299 N GFF2 features New page: This page describes genomic annotations found in WormBase's GFF2 genome feature tables. {| cellspacing="4" | ALLELE:. | 14814 |- | cDNA_match:BLAT_mRNA_BEST | 24512 |- | cDNA_match:BLAT_m...
- 03:09, 24 September 2007 diff hist +1,744 N AceDB classes tutorial New page: The following table lists common WormBase classes. {| border="1" |- class="datatitle" ! Object ! Name ! Class ! Notes |- class="databody" ! A Predicted Gene | A cosmid dot name, such as F...
- 03:01, 24 September 2007 diff hist +358 N SOPs New page: == Internal Documentation == This page provides an area to collect standard operating procedures for each of the WormBase centers. * [[Project-wide_documentation|Project-wide documentati...
- 02:52, 24 September 2007 diff hist +2 Main Page
- 02:51, 24 September 2007 diff hist +4,000 N Wiki objectives and usage guidelines New page: == About the WormBase Wiki == This document describes the objectives and usage guidelines of the WormBase Wiki. Wikis are community-driven, collaborative websites. Users may freely post ... current
- 02:50, 24 September 2007 diff hist +2 Main Page
- 02:45, 24 September 2007 diff hist +1,968 N AceDB classes New page: This is a list of the most prominent classes in use in the AceDB database employed by WormBase. To display the current model of any class, include the following text in your documentation...
- 02:31, 24 September 2007 diff hist +1,169 N Data mining New page: == Data Model == # About the WormBase data model - ''how data is stored and structured at WormBase'' # AceDB classes - ''A comprehensiv...
- 02:28, 24 September 2007 diff hist +1,866 N RSS news feeds New page: == About RSS feeds at WormBase == WormBase news feeds (using the RSS format) provide a convenient mechanism for staying up-to-date with new datasets, features, and system status. Browsers...
- 02:26, 24 September 2007 diff hist +2,123 N Mailing lists New page: == Public Mailing Lists == WormBase maintains four public/semi-public mailing lists: '''wormbase-announce@wormbase.org''' Announcements of general interest to the community, including a...
- 02:25, 24 September 2007 diff hist +62,608 N Former How To Build A WormBase Mirror New page: = Hardware requirements = WormBase runs on a Unix or Linux system (with the caveat that Mac OS X is, essentially, a Unix system). A relatively fast system with generous memory is strongly...
- 02:19, 24 September 2007 diff hist +12,620 N Virtual Machines New page: = Overview = "Virtual Machines" (or VMX) are self-contained packages of everything you need to use WormBase locally. To keep downloads small, we've split virtual machines into two compone...
- 02:16, 24 September 2007 diff hist +1,796 N Local installation of WormBase New page: Imagine being able to run WormBase on your own local computer, unencumbered from server load at www.wormbase.org, network latency, or even the need for a network connection. Run BLAST sear...
- 02:05, 24 September 2007 diff hist +48 N Gene Prediction New page: This page has been moved. Please see: NGASP current
- 01:00, 24 September 2007 diff hist +40 Main Page →Community Resources
- 00:59, 24 September 2007 diff hist +3,761 N Job Openings New page: '''Please place job postings on the Worm Community Forum at ''' http://www.wormbase.org/forums/ Note: you need to register again at the Forum. ---- ''' Old submissions ''' ---- 11. ...
- 00:45, 24 September 2007 diff hist +1,721 N Citing WormBase New page: Please cite WormBase as follows: WormBase web site, http://www.wormbase.org, release WSXX, date XXX. Use the current WS release number and release date in your citation. This informatio...
- 00:40, 24 September 2007 diff hist +2 FAQs →TEMPLATE
- 00:39, 24 September 2007 diff hist +8,128 N FAQs New page: __NOTOC__ '''Contents:''' #top - 0-9 A B C D E F G H I J K L M N O [[...
- 00:31, 24 September 2007 diff hist +23 Main Page →Using WormBase
- 00:29, 24 September 2007 diff hist +56 Glossary of terms
- 00:28, 24 September 2007 diff hist +56 Glossary of terms