User: douwevanderleest

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Posts by douwevanderleest

<prev • 5 results • page 1 of 1 • next >
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Comment: C: Extract reads within given region, and their mates
... How is this possible? > [reads] **mapped** to a chromosome with a sensible fragment length [which] are **NOT MAPPED** ? I have taken a look at one of my bam files, extracted a region and sought for unmapped reads in the resulting sam output. I actually found a single read that is registered as b ...
written 15 months ago by douwevanderleest10
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Comment: C: Scientific Names In Blast Output And Databases
... This reply was VERY USEFULL. I would have never figured this out on my own. I have been trying to get blastn working for two days straight untill I found your comment hidden below a few answers that I had read mutliple times already. ...
written 19 months ago by douwevanderleest10
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Comment: C: What Is The Best Way To Download Genbank Locally?
... It has been roughly 6.3 years since this was posted, but in case you or anyone is still wondering, I think your issue is the use of the perl command at the beginning. with the installation of BLAST+ the path to update_blastdb.pl is likely added to the PATH variable. The perl command takes a script i ...
written 19 months ago by douwevanderleest10
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Comment: C: bcftools isec tries to create a directory called README.txt inside target direct
... [username2@cloud vcf]$ ls -la MyDir total 2 drwxr-xr-x 1 u username1 0 Apr 16 16:24 . drwxrwxr-- 1 u username1 0 Jan 1 1970 .. drwxr-xr-x 1 username1 admins 0 Apr 16 16:25 README.txt [username2@cloud vcf]$ ls -la MyDir/README.txt/ total 1 drwxr-xr-x 1 username1 ...
written 2.1 years ago by douwevanderleest10
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bcftools isec tries to create a directory called README.txt inside target directory
... I am running bcftools isec on two bcftools compressed vcf files (vcf.gz) with root permission. However, bcftools (1.5-17-g4f134df-dirty) isec tries to create a directory called README.txt inside the target directory. bcftools isec test1.vcf.gz test2.vcf.gz -p MyDir -Oz -o MyOut.vcf.gz The noti ...
software error bcftools isec written 2.1 years ago by douwevanderleest10

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