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The following instructions explain how to update this file. The instructions assume you are not going to make a new genome version directory and that all you need to do is update a refGene data set.
| Note |
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As of IGB 10.1.0 most UCSC genome versions and tracks should now be available by default in IGB via the UCSC REST data provider. |
Understand IGB QuickLoad naming conventions
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However, the UCSC genome browser sometimes include species names in the title of its mRNA track. IGB QuickLoad data sets should not include species names in the titles. For example, the title of an mRNA track is always "mRNA" and never (for example) "Zebrafish mRNA."
Command-line utilities you'll need
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- tabix and bgzip from htslibÂ
- git
- svn
- UNIX wget (not installed by default on Mac but available on most other UNIX systems)
- UNIX sort
- UNIX gunzip
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| Code Block |
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$ git pull origin mastermain-JDK8 |
Use svn to get a copy of the QuickLoad data repository: TO BE UPDATED
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