User: yjyj

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yjyj0
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Posts by yjyj

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Answer: A: bedtools closest - result for only the first query
... I've found the problem, but no solutions unfortunately. I originally made the query .bed file on Excel for Mac (Office 365), and it had issues with bedtools (version 2.27.1) closest, intersect and sort. But when I made the file on a Windows computer, no problem! Very strange, because I didn't have ...
written 2.6 years ago by yjyj0
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Comment: C: bedtools closest - result for only the first query
... I just deleted bedtools and reinstalled v2.27.1, but they gave the same results. But what do you mean by hosting files? Thanks for your input! Some more updates: When I put another query file in, it worked fine! So I now suspect something went wrong while making the query bed file (exporting Excel ...
written 2.6 years ago by yjyj0
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Comment: C: bedtools closest - result for only the first query
... I've always sorted the query file. This code also didn't work.. PS. I only tried intersect because closest didn't work properly, but both gave output for the first entry. So it seems there's a problem with the file, I just have no idea what's wrong ...
written 2.6 years ago by yjyj0
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bedtools closest - result for only the first query
... I'm trying to annotate a bed file with the closest downstream gene, but the output returns **only** the result for the **first entry** of the query file. I tried deleting the first entry and made a new file starting with the 2nd, but this one also only gave outputs for the 2nd (1st) entry. I have 10 ...
bedtools software error closest bed written 2.6 years ago by yjyj0 • updated 4 months ago by Biostar ♦♦ 20

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