User: leukippus0116

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Posts by leukippus0116

<prev • 6 results • page 1 of 1 • next >
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Comment: C: How to filter Germline variants from vcf file?
... Thank you for your comment! I think what you said is the right for germline variant, but here is my vcf file example, my variant contains very low VMF/VF.(0.0740741). Does this mean somatic variant?? In FORMAT, VF is defined as "Variant UMI allele frequency, same as VMF," so I thought I have to elim ...
written 14 days ago by leukippus01160
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Answer: A: docker image building error
... I solved this problem, I'm using new MacBook Air with ARM processor, and this pipeline is for Intel one... ...
written 15 days ago by leukippus01160
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How to filter Germline variants from vcf file?
... Hello. I'm new to Bioinformatics working on NGS data. Now I'm working on detecting SNP variants causing multiple sclerosis. I selected some genes for target resequencing and got NGS data. I put these datas into Qiagen's NGS variant calling pipeline and got vcf files for each samples. I checked th ...
genome vcf written 15 days ago by leukippus01160
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docker image building error
... Hello, I'm working on NGS data analysis and now I'm trying to build docker image of Variant Calling Pipeline using GATK4(https://gencore.bio.nyu.edu/variant-calling-pipeline-gatk4/). I have encountered an error while building this docker image. I'm new to Bioinformatics so I would appreciate if you ...
building docker written 4 weeks ago by leukippus01160
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Comment: C: Trimmomatic couldn't generate output file
... Thank you for your kind reply! I edited my previous post. I actually copy and pasted the first command line for the next sample, and tried several times. so maybe not a typo error... ...
written 4 weeks ago by leukippus01160
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Trimmomatic couldn't generate output file
... Hello everyone, I am new to bioinformatic. I'm working on NGS data trimming using trimmomatic and have a problem dealing with this. Can anybody help me please? I used PE mode in trimmomatic like this; @naka-71-130 fastq % trimmomatic \ > PE -threads 2 -phred33 -trimlog log.txt \ & ...
software error trimmomatic written 4 weeks ago by leukippus01160 • updated 11 days ago by swbarnes29.4k

Latest awards to leukippus0116

Scholar 14 days ago, created an answer that has been accepted. For A: docker image building error

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