User: mp85

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mp8510
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1 year, 10 months ago
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2 years, 2 months ago
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Posts by mp85

<prev • 3 results • page 1 of 1 • next >
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sciClone: usage for inferring tumor clonality
... Hi, I'm trying to use sciClone to infer the clonal evolution of some tumor data. I have a couple of questions about its usage (hope I'm not repeating any older question, I checked carefully but none seems satisfying): 1. I have vaf files (from the VarScan variant caller) containing both normal and ...
tumor-heterogeneity R sciclone genome written 23 months ago by mp8510 • updated 23 months ago by Chris Miller21k
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CNV calls in VCF format, conversion to PCAWG-11 Calibration
... Hello, I have a VCF file where copy number variations are listed in this format: ##INFO= ##INFO= ##ALT= ##FORMAT= ##FORMAT= ##FORMAT= #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NORMAL TUMOUR 1 564620 . A . . SVTYPE=CNV;END=232864203 GT:TCN:MCN ./.:2:1 ./.:2:1 ...
genome next-gen snp sequencing written 24 months ago by mp8510 • updated 23 months ago by markus.riester480
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Calculate Variant Allele Frequency in a TCGA dataset
... Hello everyone, I have little to no prior knowledge of biology (let's say high school level), but I do have strong machine learning background. A project I am involved in has to do with obtaining predictions from a dataset of tumor samples. One of the predictors we need is Variant Allele Frequency ...
genome R written 2.2 years ago by mp8510 • updated 2.2 years ago by igor8.1k

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