ucsc archaeal genome browser advanced browsing september 19, 2006 david bernick, aaron cozen and...
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UCSC Archaeal genome
browserAdvanced browsing
UCSC Archaeal genome
browserAdvanced browsing
September 19, 2006David Bernick, Aaron Cozen and Todd Lowe
September 19, 2006David Bernick, Aaron Cozen and Todd Lowe
AgendaAgenda
Basic searches with the Archaea Genome browser Text searches Sequence searching - BLAT, short sequences In-silico PCR Hands-on session - Navigation and searching
Advanced features Table Browser Custom tracks Conservation tracks and inter-species navigation Hands-on session - Table Browser and Custom tracks
Basic searches with the Archaea Genome browser Text searches Sequence searching - BLAT, short sequences In-silico PCR Hands-on session - Navigation and searching
Advanced features Table Browser Custom tracks Conservation tracks and inter-species navigation Hands-on session - Table Browser and Custom tracks
UCSC Archaeal Genome Browser
Table browser
UCSC Archaeal Genome Browser
Table browserTypically used for text based queries
For example:
Which tRNA genes in Pyrococcus furiosus have an overlap with an annotated protein coding region?
2 step query:
select all Refseq annotated coding regions
intersect this group with tRNA annotated regions
Typically used for text based queries
For example:
Which tRNA genes in Pyrococcus furiosus have an overlap with an annotated protein coding region?
2 step query:
select all Refseq annotated coding regions
intersect this group with tRNA annotated regions
UCSC Archaeal Genome BrowserCustom tracks
UCSC Archaeal Genome BrowserCustom tracks
• Allows addition of your data within the browser
• Supports compressed or uncompressed files, using
• Tab separated data in GFF, GTF, BED or WIG formats
• BED files support disjoint data
• WIG files support continuous valued data
• Allows addition of your data within the browser
• Supports compressed or uncompressed files, using
• Tab separated data in GFF, GTF, BED or WIG formats
• BED files support disjoint data
• WIG files support continuous valued data
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