I am Pelayo G. de Lena and I work as a bioinformatician for the laboratory "Instituto de Estudios Celulares y Moleculares (ICM) in Lugo (Spain). On November 29th we had a videoconference about the GSA chip we are using, I hope you remember me!
As I said, we are using your GTCtoVCF tool. I would like to be able to import those .vcf to your BaseSpace Variant Interpreter tool but the GTCtoVCF output format for .vcf is not compatible and gives different formatting errors when trying to import it. I would like to ask you some questions about this:
Can we upload genotyping .vcf's files or does the Variant Interpreter only accept vcf's that come from sequencing?
Do you have any tool/script to reformat the vcf that come out of GTCtoVCF to import into BaseSpace Variant Interpreter directly?
Does GenomeStudio has any way to create vcf files for BaseSpace?
Thank you in advance for your time and attention.
Best regards.
Dear Dr. Kelley,
I am Pelayo G. de Lena and I work as a bioinformatician for the laboratory "Instituto de Estudios Celulares y Moleculares (ICM) in Lugo (Spain). On November 29th we had a videoconference about the GSA chip we are using, I hope you remember me!
As I said, we are using your GTCtoVCF tool. I would like to be able to import those .vcf to your BaseSpace Variant Interpreter tool but the GTCtoVCF output format for .vcf is not compatible and gives different formatting errors when trying to import it. I would like to ask you some questions about this:
Thank you in advance for your time and attention. Best regards.