User: lyfsa

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lyfsa30
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Posts by lyfsa

<prev • 26 results • page 2 of 3 • next >
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Comment: C: How To Use Illumina 1.8 Reads In Stampy?
... yes but stampy is throwing error when used with --bwaoptions. ...
written 8.0 years ago by lyfsa30
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How To Use Illumina 1.8 Reads In Stampy?
... Hi, Is it possible to use illumina 1.8 reads in Stampy?? ...
written 8.0 years ago by lyfsa30 • updated 8.0 years ago by Istvan Albert ♦♦ 84k
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How To Get All Entries Of B With Bedtools
... Hi All, Is there any way to get all the original B entry(even the ones for which there is no overlap with A as well) in intersectBed utility? I am trying to overlap two bed files. I need all the entry of file B which I put in -b options. I can not switch the file as the size of file A i.e in -a op ...
bedtools intersect written 8.1 years ago by lyfsa30 • updated 8.1 years ago by Chris Miller21k
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Comment: C: How To Generate Library File When Using Candidate Indels?
... Thank you. I will just create the library file using 1st step. This might work. I could not find any other way right now. ...
written 8.1 years ago by lyfsa30
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Comment: C: How To Generate Library File When Using Candidate Indels?
... But I am using candidate indels from pindel and using it in dindel. Do I still have to follow step 1 in that case?? ...
written 8.1 years ago by lyfsa30
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How To Generate Library File When Using Candidate Indels?
... Hi All, I am trying to run dindel with candidate indels from another variant caller. Now I have the -varfile (variant file) but how can I generate the --libFile (library file), which is required in the step 3 of dindel(step 3 mentioned below) dindel --analysis indels --doPooled --bamFile sample.b ...
written 8.1 years ago by lyfsa30 • updated 8.1 years ago by roll320
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Comment: C: Del As Type Instead Of Ctx
... I did not mean that either..no worries :)) ...
written 8.1 years ago by lyfsa30
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Comment: C: Del As Type Instead Of Ctx
... I was aware that this question have been asked before. Just hoping that someone would help me find answer in this forum :) ...
written 8.1 years ago by lyfsa30
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Del As Type Instead Of Ctx
... I am using Breakdancer to find structural variations. In the breakdancer output, sometimes type is DEL instead of CTX.. for example: 10 59991766 5+5- 11 4566490 29+29- DEL 326 99 24 10 572729 30+14- 12 37240761 14+15- DEL 224 78 8 Shoul ...
breakdancer written 8.1 years ago by lyfsa30 • updated 7.4 years ago by ernfrid390
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Comment: C: Problem With Sorting Bam File: Samtools
... I did not wait for command to finish. I was not aware of this piece of information for sorting. Thank you for answering :) ...
written 8.2 years ago by lyfsa30

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