Genome Browser Link Rules
This topic lists aliases that can be mapped pages and subsequence coordinate to external wikis and sequence browsers. Shorthands of the formExternalSite:Name/Start-End are auto-expanded.
Wishlist:
I think what we really want is a (slightly) more generic pattern-expansion definition language here.
The "Alias" column in the table below should read Fly:$name/$start-$end, Worm:$name/$start-$end etc.
IH 2/17/07
How to define subsequence coordinate links
- Subsequence coordinate links are defined in the tables below.
- Each entry must be of format:
| External site alias | URL | Tooltip help text |. - If the URL and Tooltip Text contain
$name,$startor$end, then these get expanded to the sequence name, start and end coords. If there is no$name, then the name is appended to the URL. - Note: The Tooltip Text must not contain any HTML tags (including
<nop>escape code), no internal WikiWord links, and no external links. Hint: Escape'WikiWords','$name','$start'and'$end'.
General subseq coord Links
| Alias: | URL: | Tooltip Text: |
|---|---|---|
| Fly | http://flybase.bio.indiana.edu/cgi-bin/gbrowse_fb/dmel?name=$name%3A$start..$end | D.melanogaster r4.1 chromosome $name, $start..$end |
| Worm | http://www.wormbase.org/db/seq/gbrowse/wormbase?name=$name%3A$start..$end;source=wormbase;width=800;version=100 | C.elegans chromosome $name, $start..$end |
Topic revision: r4 - 2007-02-17 - TWikiGuest
Home 
Site map
Blog web
User registration
Users
Groups
Index
Search
Changes
Notifications
RSS Feed
Statistics
Preferences
Copyright © 1999-2013 by the contributing authors. All material on this collaboration platform is the property of the contributing authors. Ideas, requests, problems regarding TWiki? Send feedback
Note: Please contribute updates to this topic on TWiki.org at TWiki:TWiki.InterSeqs.