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Old 01-24-2015, 09:36 AM   #1
Andrea_G
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Location: CEITEC - Brno - CK

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Smile Phyton - Find gene ID from genome coordinate

Hi All,

I'm developing a Python tool to find gene translocation from NGS data. After alignment and reads selection, I would like to obtain their gene ID by genome coordinate.

I tried to googling but without success. Do you now how can I do it?

Thank,

Andrea
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Old 01-24-2015, 07:14 PM   #2
brentp
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import cruzdb

g = cruzdb.Genome('hg19')
g.bin_query('refGene', 'chr1', 1234567, 1234568).all()
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Old 01-24-2015, 11:48 PM   #3
Andrea_G
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Ok, nice module. It works.

Thank you brentp!
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