Venkatesh Chellappa

icon indicating a website link https://ki.se/en/people/venche

icon company Karolinska Institutet icon location Solna, Sweden icon location Bioinformatics developer. Shell, Python, R, AWS, Spark, Singularity, Docker.

Results 7 comments of Venkatesh Chellappa

SVTYPE classification

Hi Jeremiah, I have been taking SvABA for a spin in the past few weeks and I am impressed. Has there been any update on the above BND>BED conversion? TIA,...

SVTYPE classification

Hi Jeremiah, I am working on the script now and will pass it on soon. I am testing svaba's suitability for liquid biopsy samples and it is for this purpose...

SVTYPE classification

Hi linwang6, You wrote "Hi all, I'm also confused how to trans the BNDs (from svABA) to known SV type DUP,INV,TRA,DUP? Has any one figured it out? Thanks." I see...

SVTYPE classification

It is such a clean and simple work! But again, we need to add another flag for SVTYPE=TRA for complex events when it is a confirmed translocation. Right now, it...

SVTYPE classification

Hi Vaishnavi, What is that you are trying to communicate here. While posting your issues, could you please 1. state your usage of this tool (what you are trying to...

SVTYPE classification

it is the end of 2022 and I see people are still using svaba despite no regular updates or upgrades. if SVtype classification was done and the tool itself was...

Example BAM file and output file are available?

Hi Sanghoon, I have been using svaba for a while now and I think I understand why this issue occurs. svaba takes into consideration only those events which have good...