amootta

Error in plotting scatter

1

Hi, despite specifying an output file for the scatter program, I am still unable to produce any diagrams due to this error: qt.qpa.plugin: Could not load the Qt platform plugin...

Hi all, I am trying to run NGSCheckMate on paired normal-tumour samples. It seems to be running the samtools mpileup fine, and producing the appropriate vcf files. However, I received...

Error in running motifBreakR

1

Hi, I am trying to run motifBreakR with the following command: results scoreSeqWindows -> t -> .handleSimpleError -> h I have tried to see if it was a problem wtih...

Error in minimap alignment

3

Hi there, I have just downloaded SenSV and am currently trying to use it to analyze some WGS data (approx 4X coverage) of two cell lines. This data was generated...

Use for multiple sample differential analysis

1

Hi, Thanks for posting these workflows. Very helpful! May I ask how you would modify the R pipeline for differential analysis of multiple treated samples vs multiple controls? Your pipeline...

**Describe the issue** filterMaf returns errors whenever I try to run it **Command** output: ```r Error in `[.data.table`(summary, , `:=`(Mean, vc.mean)) : Supplied 13 items to be assigned to 14...

unable to infer tumour purity

4

Hi there, Hope you're well! I am running accucopy on multiple paired tumour-normal WGS samples. It has worked perfectly on most of them, except for in one sample where the...

Converting TSV for use

1

Hi there, Have just recently installed NanoMethViz. I am unsure what format is needed to be loaded for it to work? I have phased TSV files resulting from Nanopolish methylation...