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QuickLoad sites can reside on a user's local computer your computer hard drive or on a remote Web (http) or FTP site.

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• meta-data files describing available genome versions, annots
• data files, such as including sequence data, alignments, genome graphs, and annotationannotations

You can set up a QL site on your local computer or on a web server.

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Step Two: Create one or more genome directories.

Next create Create genome directories for each of the genome versions you want to make available via QuickLoad.

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For example, there are two Oryza sativa (rice) subspecies in wide cultivation: japonica and indica.The first rice sequence published was from the Nipponbare variety which is a member of the japonica subspecies. Because an indica genome sequence is now available, and we need names that distinguish them. We designate assemblies of the original genome sequence using prefix O_sativa_japonica and the month and year of release: O_sativa_japonica_Jun_2009. Annotations and sequence data reside in genome version folder O_sativa_japonica_Jun_2009 on the main IGB QuickLoad site - view its contents by visiting http://igbquickload.org/quickload/O_sativa_japonica_Jun_2009

Tip: If you set up your QuickLoad site in the Web directories of an Apache server, you can modify and fine-tune how files are displayed by adding directives to the .htaccess file in that directory.  You can configure Apache to allow users to view the contents of your QuickLoad directory and include a short description of each file or data set. Here is an example:

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This is a list of synonyms for genomes.  This list allows you to match names across diverse quickload sites. For example, if a DAS1 or DAS2 data source (such as ones hosted at Ensembl or UCSC) use uses different names to refer to the same genome version, you can specify these herein the synonyms.txt. Each line contains any number of synonyms for a genome, separated by tabs.  Details about this file can be found on the Personal Synonyms page.For an example, see the attached ^synonyms.txt file.  

Here is an example: http://igbquickload.org/quickload/synonyms.txt^{Image Added}

Step Four: Create genome.txt files.

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The first column lists the chromosome names and the second column lists their sizes. IGB uses this file to create the sequence selection table under the Data Access Panel.

Here is an example of a genome.txt file from the BioViz QuickLoad site:Image Removed*: *http://igbquickload.org/quickload/A_thaliana_Jun_2009/genome.txt^{Image Added}

Note: You can create your genome.txt file from a sequence 2bit file (see below) using twoBitInfo, available from http://hgdownload.cse.ucsc.edu/admin/exe/. See Step Seven: Add sequence data.

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