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The Table Browser provides text-based accessto the genome assemblies and annotation data stored in the Genome Browser database. As a flexiblealternative to the graphical-based Genome Browser, this tool offers an enhanced level of querysupport that includes restrictions based on field values, free-form SQL queries, and combinedqueries on multiple tables. Output can be filtered to restrict the fields and lines returned, andmay be organized into one of several formats, including a simple tab-delimited file that can beloaded into a spreadsheet or database as well as advanced formats that may be uploaded into theGenome Browser as custom annotation tracks. The Table Browser provides a convenient alternative todownloading and manipulating the entire genome and its massive data tracks. (See theDownloading Genome Data section.)
The default parameter settings are recommended for general purpose use of the liftOver tool.However, you may want to customize settings if you have several very large regions to convert.Command-line coordinate liftingThe command-line version of liftOver offers the increased flexibility and performance gained byrunning the tool on your local server. See an example ofrunning the liftOver tool on the command line.This utility requires access to a Linux platform. Theexecutable file may be downloaded here.Command-line liftOver requires a UCSC-generated over.chain file as input. Pre-generatedfiles for a given assembly can be accessed from the assembly's \"LiftOver files\" link onthe Downloads page. If the desiredconversion file is not listed, send a request to the genome mailinglist and we may be able to generate one for you. For use of the command-lineversion of LiftOver, we require all for-profit businesses or commercial companies topurchase a license to support our small team. 59ce067264
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