cnv_facets

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How to generate Gistic2.0 input data from cnv_facets output

4

I get the vcf file form cnv_facets I use the WGS data I wonder How can I get the segment data from the vcf data especially the column of number...

LileeGao

Warning message: region "1" specifies an unknown reference name. Continue anyway.

3

I have the bam files of a tumour sample "T11QM0022" and its matched normal sample "B11QM0022". They were generated using the GATK4 Best Practices pipeline. They are sorted and index....

thebrownlife

Fonts missing? Incorrect plotting of png file.

12

Hi, I test CNV_Facets with exome data and get squares instead of letters on png file. I tried different versions of the container, getting the same result. Do you have...

tstokowy

Issue after installing with conda

5

I recently installed cnv_facets with the following instructions in my University's HPC cluster: mamba create -n my_project mamba activate my_project mamba install -c bioconda -c conda-forge cnv_facets The installation works...

danielt86

When trying to run `cnv_facets.R -h`, I get the error: ``` Error: package or namespace load failed for ‘ggplot2’ in loadNamespace(j 1.0.1 is required Execution halted ``` When I run...

gaitat

Error in value[[3L]](cond) : index build failed

1

Hi, I am using the latest biocontainer with cnv_facets: 0.16.1 installed. From a set of 11 samples, I just have one sample that has the issue pasted below when the...

grrompala

Using other reference genome builds

1

Is there any way to use reference genomes of organisms other than hg19, hg38, mm9, and mm10? I am trying to use facets for dog samples (canFam3) and the first...

mhSepehri