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Random browser formatting bug fixed.
Update: Here's a video demo of the new Joost.
While most frequently used to transform XML into HTML, it can also be used to transform equivalent XML data between schemas, or to output data in other browser formats.
By using Andrew Benson's hsFLow shaders as a backbone, Ferriss has brought the application to the browser format thanks to a javascript / webGL interface, and has added new effects along with his own personal aesthetic flourishes.
Our physical map has been integrated into a genome browser format and can be accessed through http://www.modelcrop.org.
The bisulfite sequence tracks in UCSC genome browser format are available on our website (http://people.cgb.indiana.edu/jeochoi/methylation). The source code package with documentation is available online at http://sourceforge.net/projects/bsmapper.net/projects/bsmapper
FIMO provides output in a variety of formats, including HTML, XML and several Santa Cruz Genome Browser formats.
We have incorporated the data from our analysis into a web-based genome browser structured using the UCSC browser format (Kent et al. 2002).
The ability of ConiferEST to systematically present complex EST data to the community in a searchable browser format is a major strength of the system.
RGD has replaced its old tree browser format with a 'driller' type of browser that allows quicker drilling up and down through the term branches, which has been confirmed by testing.
Facilities for data output include fasta and fastq text formats, arbitrary column-oriented output of reads and auxiliary information, serialization of objects in native R format, and through use of additional R packages such as rtracklayer export to common genome browser formats such as wiggle, bed and gff (Kuhn et al., 2008).
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