User: OAJn8634

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OAJn863450
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Posts by OAJn8634

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Comment: C: Remove duplicates in an extremely large text file
... This has worked. Thank you very much for the suggestion! ...
written 6 months ago by OAJn863450
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Comment: C: Remove duplicates in an extremely large text file
... Thank you for your suggestion. I have tried this command a few times but unfortunately I get an error: Cannot allocate memory ...
written 6 months ago by OAJn863450
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10 follow
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Remove duplicates in an extremely large text file
... I have a very large text file (9.2GB) that contains data in two columns (named All_SNPs.txt). I would like to use this file to convert my chr:pos to rs in my plink files. The file looks like this: 1:116342 rs1000277323 1:173516 rs1000447106 1:168592 rs1000479828 1:102498 rs10004930 ...
uniq plink snp awk written 6 months ago by OAJn863450 • updated 6 months ago by Santosh Anand4.9k
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Comment: C: How to write a code in Linux to manipulate a large file with grep/awk
... Thank you very much 5heikki for your help. ...
written 6 months ago by OAJn863450
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Comment: C: How to write a code in Linux to manipulate a large file with grep/awk
... Hello Bastien Hervé and finswimmer, Thank you very much for the very useful links on how get me started, and for offering to help. I really appreciate it. ...
written 6 months ago by OAJn863450
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Comment: C: How to write a code in Linux to manipulate a large file with grep/awk
... Dear Alex, Thank you so much for your help. It has worked like magic! Thank you ...
written 6 months ago by OAJn863450
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How to write a code in Linux to manipulate a large file with grep/awk
... Following the discussion a previous discussion (https://www.biostars.org/p/171557/), I would like to prepare a file for converting chr:pos to rs. For this, I have downloaded a list of all SNPs from UCSC Table Browser (https://genome.ucsc.edu/cgi-bin/hgTables). It looks like this: #chrom chrom ...
R linux rs chr awk written 6 months ago by OAJn863450 • updated 6 months ago by Alex Reynolds28k
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Comment: C: How to change SNP identifier & position to chr:start:end
... Thank you so much! This is so helpful! ...
written 6 months ago by OAJn863450
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Comment: C: How to change SNP identifier & position to chr:start:end
... This is perfect. Thank you very much ...
written 6 months ago by OAJn863450
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Comment: C: How to change SNP identifier & position to chr:start:end
... Hello. Thank you for your response. My ultimate aim is to create a `.txt` file that will contain `chr, start and end` data for my 30K variants. I will then use this `.txt` file for other analysis. So I really do not mind the format for the output for a long as I can read it in R. My current bim fil ...
written 6 months ago by OAJn863450

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