Hi everyone,
I would like to know how to retrieve the download link for a specific file e.g. wgEncodeHaibTfbsH1hescAtf3V0416102AlnRep1.bam, through UCSC Public MySQL server? Because I have hundreds of file names (and their UCSC accession numbers) obtained from querying the metaDb, and I want to get the download links for these files now. Thanks!
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zk65900931 •
1 answer
You might find this page useful, even if you do not use R for analysis:
http://watson.nci.nih.gov/~sdavis/tutorials/publicdatatutorial/publicDataTutorial.pdf
See section 5.1. To construct a URL from the resulting data.frame, you simply need to paste the base url:
http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/
followed by the value in the "composite" column like:
wgEncodeHaibTfbs
followed by the value in the "fileName" column like:
wgEncodeHaibTfbsH1hescAtf3V0416102AlnRep1.bam
The result looks like:
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