User: sruthi

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sruthi20
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4 months, 2 weeks ago
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Posts by sruthi

<prev • 66 results • page 1 of 7 • next >
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Comment: C: Pathogenicity prediction of large insertions and deletions
... Size of indels >= 100 ...
written 7 weeks ago by sruthi20
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Pathogenicity prediction of large insertions and deletions
... Hi, Is there a method to determine the pathogenicity of large indels called from a exome data? TIA ...
next-gen sequencing written 7 weeks ago by sruthi20
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Comment: C: Microsatellite Instability (MSI)
... Okay will do it. Thank you so much. ...
written 10 weeks ago by sruthi20
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Comment: C: Microsatellite Instability (MSI)
... Hey, Thanks for the article. I have read it. Let me explain from what I understood from the graph is, <10% would be msi-low and >10% is msi-high. Did I get it right? ...
written 10 weeks ago by sruthi20
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Answer: A: Microsatellite Instability (MSI)
... Hi, Output of a tumor only case, is 2144 3491 15.01. I have a few queries regarding it. 1.From the sample output given on the github page, I understand that 15.01 is the % of "Number of somatic sites" and is the msi score as well. Is it msi-high or msi-low? 2. What is the cutoff score? Because it ...
written 10 weeks ago by sruthi20
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Comment: C: gatk-launch file missing
... Thanks for the reply. I totally understand. Will keep these trivial things(versions, command line options etc.) in mind before starting an analysis, as these play a major role. ...
written 10 weeks ago by sruthi20
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Comment: C: gatk-launch file missing
... I do get your point. But it is sad to know that such comments are passed without knowing what the person on other end is doing. 1. I did check it with no space between the options and values. It still didn't work. 2. as far as "not reading the documentation correctly is considered" which you had al ...
written 10 weeks ago by sruthi20
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Comment: C: gatk-launch file missing
... Hey, I removed the space in the command and executed again, it runs. But it is now asking for a dictionary file of reference genome, while creating one using below gatk command: gatk --java-options "-Xmx4G" CreateSequenceDictionary R= hg38.fasta O= hg38.dict I get the following error: In ...
written 10 weeks ago by sruthi20
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Comment: C: gatk-launch file missing
... I already did and there is no ConvertBedToTargetFile command in the list. I read the post on GATK forum few minutes ago and yes they have removed the command. Guidelines as in? Thanks for the information :) ...
written 10 weeks ago by sruthi20
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Comment: C: gatk-launch file missing
... I tried --java-options, now it says `ConvertBedToTargetFile command not found` ...
written 10 weeks ago by sruthi20

Latest awards to sruthi

Rising Star 10 weeks ago, created 50 posts within first three months of joining.

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