Ion Variant Hunter

Has anyone used stand-alone Variant calling tools Ion Variant Hunter on Torrent generated BAMs?

https://github.com/iontorrent/Ion-Variant-Hunter

Could you please post command line parameters used?

Thanks!

ion-torrent

• 3,312 views • link

written 13.8 years ago by learnerforever

You probably did this already, but did you try the Ion Community? http://lifetech-it.hosted.jivesoftware.com/index.jspa

• 0 views • link

written 13.4 years ago by diltsjeri

0 answers

No answers yet.

More posts like this

MUtect2-Vardict
written 5.4 years ago by sarastrafella.ss •

Hi everyone, I am performing NGS data analysis for the discovery of somatic variants in target sequencing experiment, I used Ion Torrent data and made …
construction of draft genome from the contigs
written 6.5 years ago by treesavictor83 •

Hi I am working on viral genome and the reads i generated is from ion torrent method. After performing denovo assembly using trinity tool i …
variant calling - data from IonTorrent technology
written 7.3 years ago by anba •

Hi, I have to perform variant calling with data obtained from Ion Torrent nextgen technology. I do not have access to the manufacturer's software (Torrent …
Ion Torrent sample data
written 10.5 years ago by Milan Domazet •

Hello everyone, I am making a Ion Torrent pipeline by using tools from latest torrent suite. I am having hard time finding any sample data …
Standalone BLAT database
written 11.9 years ago by QVINTVS_FABIVS_MAXIMVS

Salutations fellow computational biologists. I am running a stand alone (command line) version of BLAT and I'm having trouble finding the appropriate database file for …
Split Bam Files By Region For Parallel Variant Calling
written 14.0 years ago by William

To speed up variant calling (SNP / Indel) on a set of large BAM files I want to do the variant calling in paralell on …
Ion Torrent Mapping
written 14.3 years ago by Ian

I am new to Ion Torrent mapping, but have come to the conclusion that <a href='https://github.com/iontorrent/TMAP'>TMAP</a> is the mapper of choice at the moment. Would …
Protein Protein Interaction Prediction For Orthologue Proteins
written 14.3 years ago by Sudeep

Hi all, What are the existing methods (stand alone tools) available for protein protein interaction prediction for orthologue proteins ? I know that <a href="http://string-db.org/">STRING</a> …
Rna-Seq Data Variant Calling
written 14.3 years ago by learnerforever

Has anyone tried calling variants from RNA-seq data and comparing those with WGS/Exome sequencing variant calls in coding regions? I was curious to know if …
Suitability Of Ion Torrent For 16S Tag Sequencing?
written 14.9 years ago by Michael Barton •

The advantages of the Ion Torrent (IT) for 16S tag sequencing are a relative cheap machine with a relative cheap cost-per-run. I wonder if an …