How to use DTC genotype data?
Is it possible for the downloaded raw genotype results from companies like 23&Me or FTDNA to be used as a comparison track when looking at say exome data (BAM files)? I realise that a lot of it is intron/intergenic.
Is it possible for the downloaded raw genotype results from companies like 23&Me or FTDNA to be used as a comparison track when looking at say exome data (BAM files)? I realise that a lot of it is intron/intergenic.
Thanks Jami, I look forward to importing VCFs. Hopefully the genotype data won't be far behind as they have very similar structure to VCF.
Nick
Hi Nick,
GenomeBrowse is limited on the types of files and data that can be viewed.
Currently GenomeBrowse can handle two file types BAM and IDF. IDF format is a proprietary file format used by Golden Helix software. The only way to create this type of file at the moment is through our commercial analytic software SVS.
SVS has the ability to import genotypic data from a variety of data formats (Text, VCF, BED, etc.) that can then be converted to an annotation type track in IDF format which can then be viewed within GenomeBrowse.
Our developers are in the process of updating GenomeBrowse to load in other file formats for viewing (VCF and BED are first up on the list!) but it will still be a few months before this update will be released.
Please let us know if you have any further questions.
Thanks, Jami...
Questions should be tagged FeatureRequest for asking about a non-existing feature or proposing a new idea, GeneralInquiry for general questions about GenomeBrowse or directions on how to do something, or RanIntoProblem if you want to report an issue or had difficulty getting to an expected result.
Asked: 2013-02-18 15:05:08 -0600
Seen: 361 times
Last updated: Feb 19 '13
