User: yliuboston

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yliuboston20
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6 years ago
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Posts by yliuboston

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Comment: C: Filter Germline Mutations From .Vcf
... Thanks! That really helps a lot! ...
written 6.1 years ago by yliuboston20
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Comment: C: Filter Germline Mutations From .Vcf
... Thanks for your comment. I got .vcf file from TCGA and they indicated the parameters they used in the header of the vcf file. But those variants are too many for me to further analyze. So I am wondering if there are any protocols to work on exist vcf file because currently I do not have access to ba ...
written 6.1 years ago by yliuboston20
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Filter Germline Mutations From .Vcf
... Hi everyone, I think I have a .vcf file that have compared one tumor and its matched normal, so I guess the "subtraction" job has been done. But I am not quite sure among all those variants called, which germline mutations that I should be confirmed to use in the following analysis, like filter=pass ...
vcf written 6.1 years ago by yliuboston20 • updated 6.1 years ago by Sean Davis26k
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Comment: C: Identify Germline Mutations
... Thanks a lot for your explanation. I think I have a .vcf file that have compared one tumor and its matched normal, so I guess the "subtraction" job has been done. But I am not quite sure among all those variants called, which germline mutations that I should be confirmed to use in the following anal ...
written 6.1 years ago by yliuboston20
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Identify Germline Mutations
... Hi everyone, I am now trying to identify germline mutations from tumor and matched normal samples in TCGA and also I need to know this germline mutation occur in exactly which samples. I know some software like VarScan can do this, but they are all working on .bam file, I only have some .vcf files, ...
written 6.1 years ago by yliuboston20 • updated 6.1 years ago by Charles Warden7.6k

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