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About IGB QuickLoad

IGB QuickLoad (QL) is a very simple, file-based system you can use to share data files on-line , using a Web server or your Dropbox "Public" folderssite or cloud storage service like Dropbox. Using QuickLoad, you can configure data sets to appear in the IGB Data Access panel, making it easy for lab members, collaborators, and the public to browse and view your data.  Any And if you use a Web site to share your data, you can also protect it with a password in advance of publication.

You can share any file that IGB can open (using the File menu) can be accessed from > Open... ) using a QuickLoad site.

QuickLoad sites can reside on your computer hard drive, on-line, or in the cloud. Typically, you'll create a QuickLoad site on your local computer, test it, and then copy it to a Web site or a Dropbox Public folder.

A QuickLoad site contains

• simple meta-data files describing what the QuickLoad site contains
• data files, including sequence data, alignments, genome graphs, and annotations

You can set up a QuickLoad site on your local computer for your own personal use or on a web server or in a public Dropbox folder if you want to share data with others.

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How to Set Up a QuickLoad Site

Each time IGB launches, it contacts the main IGB QuickLoad site for information about commonly used genome versions.  The IGB team uses the main IGB QuickLoad site the IGB team uses to distribute reference gene annotations for  human and model organism genomes.

How to Set Up a QuickLoad Site

Step One: Create a QuickLoad root directory.

Create a QuickLoad root directory (folder) on your local computer or on a Web server. This folder will contain your genome directories and a "meta-data" file called contents.txt.

Step Two: Create one or more genome directories.

Create genome directories corresponding to genome versions you want to make available via your QuickLoad. 

First, find out if main QuickLoad site already supports your genome of interest. To find out which genome versions are already supported, view http://igbquickload.org/quickload/contents.txt.

The first column of this file lists IGB's names for genome versions and the second column lists a description of that genome. If your genome of interest is listed in this file, then you should create a version directory identical to the value in the first column. In QuickLoad, IGB genome version names are also the name of the genome version directories. So if you look at the directories listed in the main IGBQuickLoad site root directory, you'll see a directory (folder) for every genome version listed in the main site's contents.txt.

For example, if your QuickLoad site contains data for the latest human genome and no other genomes, then you should make a directory named H_sapiens_Dec_2013, which is also IGB's synonym for the version of the human genome that was released December, 2013, also called GRCh38/hg38To set up a QuickLoad site, first check to see if your genome version is already supported in the main quickload site. If yes, setting up your own QuickLoad site will be very easy.

To find out which genome versions are already supported, view http://igbquickload.org/quickload/contents.txt.

This file is a meta-data file that reports genome versions and genome version directories for all the genome versions supported on the main IGB QuickLoad site. Your QuickLoad site will also need one of these files, but you'll only list entries for genome versions you wish to support on your site.

The contents.txt file is a tab-delimited, meta-data file with two columns of data:

• Column 1 - IGB genome version name (for example, H_sapiens_Dec_2013)
• Column 2 - a description of the genome version, including commonly-used synonyms  (for example: Homo sapiens (Dec 2013) human being (GRCh38/hg38))

In an IGB QuickLoad site, genome version directories (folders) have the same names as the IGB genome version names listed in the contents.txt meta-data file. Note that for each genome version name listed in column 1, you'll find a directory with the same name in the IGBQuickLoad site root directory.

If your genome version is already listed in the main IGB QuickLoad  contents.txt meta-data file, follow these directions to share your data: Sharing data for a genome already part of IGB QuickLoad.

If your genome version is not already part of the main IGB QuickLoad site, follow these directions to share your data: Sharing data for a custom genome not already part of IGB QuickLoad.

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Step One: Create a QuickLoad root directory.

Create a QuickLoad root directory (folder) on your local computer or on a Web server. This folder will contain your genome directories and a "meta-data" file called contents.txt.

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Step Two: Create one or more genome directories.

Create genome directories corresponding to genome versions you want to make available via your QuickLoad. 

First, find out if main QuickLoad site already supports your genome of interest.

If you're setting up a QuickLoad site for a new (unsupported) genome

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