User: heartheone

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heartheone60
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New User
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China
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2 years, 8 months ago
Joined:
3 years, 3 months ago
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h*********@qq.com

Posts by heartheone

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Answer: A: Why different somatic mutation callers agree so poorly on tumor sample pairs?
... Really  thanks for your advice!! I respond here since I can't add comment or reply somehow. The button is gray and unavailable. Thanks to your useful help I found each caller had its own drawback and preference for mutation detection in tumor tissues. And all of them need optimization of parameter ...
written 2.7 years ago by heartheone60
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Why different somatic mutation callers agree so poorly on tumor sample pairs?
... I used Mutect Strelka and Varscan 2 on  multiple nomal-tumor pairs of sequencing data. Default parameters and recommanded filtration were applied. To my disappointment, they had reallllly bad concordance. Only about 10%-30% of calls given by a caller could be hit by other tools. Do you have any su ...
software error next-gen snp sequencing written 2.7 years ago by heartheone60
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what is the ”indel pileup file“ needed for somaticsniper fpfilter
... The manual says " Before proceeding you will need to obtain and compile bam-readcount (https://github.com/genome/bam-readcount). You will also need to generate a samtools pileup (not mpileup) indel file." I wonder how could I get a indel pileup file? just simply  use samtools to convert normal/tumo ...
next-gen somaticsniper tool written 3.2 years ago by heartheone60 • updated 3.2 years ago by ernfrid380

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Popular Question 2.7 years ago, created a question with more than 1,000 views. For Why different somatic mutation callers agree so poorly on tumor sample pairs?

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