Main Page: Difference between revisions
From genomewiki
Jump to navigationJump to search
m (Adding working link in science and justice section to scijust.ucsc) |
|||
| (39 intermediate revisions by 12 users not shown) | |||
| Line 1: | Line 1: | ||
== Welcome to the UCSC Genome Browser Wiki | === Welcome to the Public Support UCSC Genome Browser Wiki === | ||
This wiki site provides a forum for sharing information about the [http://genome.ucsc.edu/ UCSC Genome Browser], a | This wiki site provides a forum for sharing information about the [http://genome.ucsc.edu/ UCSC Genome Browser], a web-based tool that provides a fast, easy way to display a specific region of a genome assembly, along with dozens of aligned annotation tracks. The browser features data from a large collection of vertebrates, model organisms, and selected invertebrate genomes. | ||
In addition to offering general information about the browser on this site, we'd also like to share tips and tricks for more advanced users, information for mirror sites and developers, and discussions of the underlying data sets and experimental protocols. Please feel free to use this wiki to organize your collaborations and exchange ideas about Genome Browser usage. Our intent is to develop a collection of interesting projects and a store of information useful to a variety of audiences. | In addition to offering general information about the browser on this site, we'd also like to share tips and tricks for more advanced users, information for mirror sites and developers, and discussions of the underlying data sets and experimental protocols. Please feel free to use this wiki to organize your collaborations and exchange ideas about Genome Browser usage. Our intent is to develop a collection of interesting projects and a store of information useful to a variety of audiences. | ||
Before editing this wiki, please create an account by clicking on the "Log in/create account" link at the top of the page. For information about editing wiki pages, see also the [[Help:Contents]] link for specific information about this wiki, or for a more extensive discussion of page editing, the Wikipedia guidelines on [http://en.wikipedia.org/wiki/Wikipedia:How_to_edit_a_page How to edit a page]. For navigation and organization assistance within this Wiki, use the [[Special:Categories|Categories]] link in the navigation panel on the left. | Before editing this wiki, please create an account by clicking on the "Log in/create account" link at the top of the page. For information about editing wiki pages, see also the [[Help:Contents]] link for specific information about this wiki, or for a more extensive discussion of page editing, the Wikipedia guidelines on [http://en.wikipedia.org/wiki/Wikipedia:How_to_edit_a_page How to edit a page]. For navigation and organization assistance within this Wiki, use the [[Special:Categories|Categories]] link in the navigation panel on the left. | ||
== Get help == | |||
The UCSC Genome Browser Support Team is available to answer questions by contacting one of the support forums: | |||
* Post to the Public Help Forum: Email genome@soe.ucsc.edu or search the [https://groups.google.com/a/soe.ucsc.edu/forum/#!forum/genome Public Archives] | |||
* Post to the Mirror Help Forum: Email genome-mirror@soe.ucsc.edu or search the [https://groups.google.com/a/soe.ucsc.edu/forum/#!forum/genome-mirror Mirror Archives] | |||
* Confidential/private help: Email genome-www@soe.ucsc.edu | |||
Also see related pages on the UCSC Genome Browser site: | |||
* [http://genome.ucsc.edu/contacts.html Contact Us] | |||
* [http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html Browser Documentation] | |||
== UCSC Genome Browser Announcements List == | |||
Subscribing to this list provides occasional email alerts for new data & software. | |||
* Subscribe: Email genome-announce+subscribe@soe.ucsc.edu | |||
* Unsubscribe: Email genome-announce+unsubscribe@soe.ucsc.edu | |||
Also see related pages on the UCSC Genome Browser site: | |||
* [http://genome.ucsc.edu/goldenPath/releaseLog.html Release Log] | |||
* [[Genome_Browser_Software_Features|Tri-weekly New Software Summaries]] | |||
* [http://genome.ucsc.edu/goldenPath/newsarch.html News Archives] | |||
* [http://genome.ucsc.edu/training/index.html Training] | |||
== Join us on social media == | |||
Join us on Social Media! | |||
* [https://www.facebook.com/ucscGenomeBrowser Facebook] | |||
* [http://www.twitter.com/GenomeBrowser Twitter] | |||
* [http://genome.ucsc.edu/blog/ Wordpress Blog] | |||
* [http://www.youtube.com/channel/UCQnUJepyNOw0p8s2otX4RYQ YouTube] | |||
== Using genome.ucsc.edu == | == Using genome.ucsc.edu == | ||
* [[Learn about the Browser|Learn more about the browser]] | * [[Learn about the Browser|Learn more about the browser]] | ||
* [http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#CustomTracks How to create a custom track] | * [http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#CustomTracks How to create a custom track] | ||
* [[Browser_installation|Minimal browser install]] | |||
* [[Browser Mirrors|Maintaining Browser mirrors]] | * [[Browser Mirrors|Maintaining Browser mirrors]] | ||
* [[Browser Installation| Installing Browser Mirror]] | * [[Browser Installation| Installing Browser Mirror]] | ||
* [[:Category:User Developed Scripts| User Developed Scripts]] - helpful hints from the user community | |||
== Genome Browser in a Box (GBiB) == | |||
* [[GBiB: From download to BLAT at assembly hubs]] | |||
* [[GBiB: Deploying on VMWare ESXi]] | |||
== Genome Biology == | == Genome Biology == | ||
| Line 17: | Line 60: | ||
== Browser Development == | == Browser Development == | ||
* [[:Category:Technical_FAQ|Technical FAQ Category]] - list of technical discussions | |||
* [[ENCODE Project at UCSC]] | |||
* [[Automation]] of genome assembly database builds | * [[Automation]] of genome assembly database builds | ||
* [[Custom track database]] implementation | * [[Custom track database]] implementation | ||
* [[Track metadata handling]] - discussion of design for expanded search/display, especially for ENCODE | * [[Track metadata handling]] - discussion of design for expanded search/display, especially for ENCODE | ||
* [[Known genes III]] - design and discussion of next generation known genes track | * [[Known genes III]] - design and discussion of next generation known genes track | ||
* [[Medical Sequencing Data|Medical sequencing data]] - discussion for design of next generation medical sequence data organization | * [[Medical Sequencing Data|Medical sequencing data]] - discussion for design of next generation medical sequence data organization | ||
* [[Web Services & Javascript]] - design and discussion of a genome browser architecture for the 2010's and maybe 2009.... | |||
* [[Implementation_Notes]] describe some of the down-and-dirty details that QA engineers often ask developers about... or that they get an earful about when they ask simple questions! | * [[Implementation_Notes]] describe some of the down-and-dirty details that QA engineers often ask developers about... or that they get an earful about when they ask simple questions! | ||
---- | |||
== Science and Justice == | |||
* [[Genomics and Justice Meeting at UC Santa Cruz, May 17-18, 2007]] | |||
* [https://scijust.ucsc.edu/ Science and Justice] at UCSC. | |||
* [[Ethics in the News]] | |||
== Administrative Information == | == Administrative Information == | ||
| Line 30: | Line 82: | ||
<google></google> | <google></google> | ||
[[Category:Wiki Administration]] | |||
Latest revision as of 21:15, 26 February 2019
Welcome to the Public Support UCSC Genome Browser Wiki
This wiki site provides a forum for sharing information about the UCSC Genome Browser, a web-based tool that provides a fast, easy way to display a specific region of a genome assembly, along with dozens of aligned annotation tracks. The browser features data from a large collection of vertebrates, model organisms, and selected invertebrate genomes.
In addition to offering general information about the browser on this site, we'd also like to share tips and tricks for more advanced users, information for mirror sites and developers, and discussions of the underlying data sets and experimental protocols. Please feel free to use this wiki to organize your collaborations and exchange ideas about Genome Browser usage. Our intent is to develop a collection of interesting projects and a store of information useful to a variety of audiences.
Before editing this wiki, please create an account by clicking on the "Log in/create account" link at the top of the page. For information about editing wiki pages, see also the Help:Contents link for specific information about this wiki, or for a more extensive discussion of page editing, the Wikipedia guidelines on How to edit a page. For navigation and organization assistance within this Wiki, use the Categories link in the navigation panel on the left.
Get help
The UCSC Genome Browser Support Team is available to answer questions by contacting one of the support forums:
- Post to the Public Help Forum: Email genome@soe.ucsc.edu or search the Public Archives
- Post to the Mirror Help Forum: Email genome-mirror@soe.ucsc.edu or search the Mirror Archives
- Confidential/private help: Email genome-www@soe.ucsc.edu
Also see related pages on the UCSC Genome Browser site:
UCSC Genome Browser Announcements List
Subscribing to this list provides occasional email alerts for new data & software.
* Subscribe: Email genome-announce+subscribe@soe.ucsc.edu * Unsubscribe: Email genome-announce+unsubscribe@soe.ucsc.edu
Also see related pages on the UCSC Genome Browser site:
Join us on social media
Join us on Social Media!
Using genome.ucsc.edu
- Learn more about the browser
- How to create a custom track
- Minimal browser install
- Maintaining Browser mirrors
- Installing Browser Mirror
- User Developed Scripts - helpful hints from the user community
Genome Browser in a Box (GBiB)
Genome Biology
- Genome Analysis - Phylogenetic origin of human SGSH introns Ancestral_introns:_SGSH
Browser Development
- Technical FAQ Category - list of technical discussions
- ENCODE Project at UCSC
- Automation of genome assembly database builds
- Custom track database implementation
- Track metadata handling - discussion of design for expanded search/display, especially for ENCODE
- Known genes III - design and discussion of next generation known genes track
- Medical sequencing data - discussion for design of next generation medical sequence data organization
- Web Services & Javascript - design and discussion of a genome browser architecture for the 2010's and maybe 2009....
- Implementation_Notes describe some of the down-and-dirty details that QA engineers often ask developers about... or that they get an earful about when they ask simple questions!
Science and Justice
- Genomics and Justice Meeting at UC Santa Cruz, May 17-18, 2007
- Science and Justice at UCSC.
- Ethics in the News
Administrative Information
You must log in and confirm your email address to edit pages. To create an account, click the "Log in/create account" link at the top of the page, then confirm your email address via the "Preferences" link. Please note: all content you create in genomewiki is public content and cannot be removed since it is always in the history of a page even if it is deleted after creation.
<google></google>
