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to gen...@soe.ucsc.edu
Hi, everyone.
I would like to know how to implement case-insensitive or incomplete searches at an assembly hub. If I search by SOD1, Sod1, sod1 or even only od1 at Human assembly, all of this searches are successful. But not at my assembly hub.
For example, if I try to search smp_019460 at the following assembly hub:
In essence a program called ixIxx creates an additional "trix" index files. Then in the trackDb.txt, along with the "searchIndex name" line to use the bigBed that is indexed, a second "searchTrix outFile3.ix" line is added. Beyond just being able to search for named items like "SJ_96833_AA|GG", you can also search for related indexed text to those named items such as "2053" from the line used during creating the second index: "SJ_96833_AA|GG 996 + 2053 -1 996".
If you search 2053 in the above attached hub link, scroll down to the bottom of results to see the hub_56229_bigBed1 section with a match on SJ_96833_AA|GG at chr21:33032156-33036103.
Thank you again for your inquiry and using the UCSC Genome Browser. If you have any further questions, please reply to gen...@soe.ucsc.edu. All messages sent to that address are archived on a publicly-accessible forum. If your question includes sensitive data, you may send it instead to genom...@soe.ucsc.edu.