stroke1989

purity=NA

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Hi, After I got help from @dariober , I finally runned cnv_facets sucessfully.Appreciate! The output included a plot. I have several questions: 1. why was the purity value NA in...

interpretation of the result

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Hi , I'm a new to CNVKIT, CNVKIT is a excellent tools. I tried to use this tool to analyze my WES data. The following is my plot: I have...

method

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Hi, I'm a new to cnvkit. Thanks for this excellent tool. As it was pointed out in the documentation, CNVkit is primarily designed for use on hybrid capture sequencing data,...

purity is NA and how to interpret the plot

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Hi, After I got help from @dariober , I finally runned cnv_facets sucessfully.Appreciate! The output included a plot. I have several questions: why was the purity value NA in all...

Dear professor: I wrote to you due to issues about conpair. when I run command: ~/software/conpair/Conpair/scripts/verify_concordance.py -T SCA_078_T.conpair.pileup -N SCA_078_N.conpair.pileup --markers ~/software/conpair/Conpair/data/markers/GRCh38.autosomes.phase3_shapeit2_mvncall_integrated.20130502.SNV.genotype.sselect_v4_MAF_0.4_LD_0.8.liftover.txt one error happened: Traceback (most recent call last):...

caller_path

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Hi Thanks for this excellent tool. caller_path the path of the 3rd-party variant calling program; in demo, Strelka2 was used. could gatk be uesd as caller?