A-To-G Editing
Hello, I am trying to identify A-to-G variants in my data and have made it so far to the creation of a *.vcf file. I would next like to filter out annotated SNPs and retain only homozyguos nonSNPs. I have gathered that I must (other options?) use read mapping data from 1000 Genome Project for this. I know that much and am completely lost at this step. Can somebody give me a hint on how to perform this step? Many thanks in advance.
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Could you clarify your question please: What type of data do you have? It's easier for us to help you if we have more information.
Read mapping data from 1000 Genome Project? Can you please be more clear about this -- you may be speaking about Humans but there is a 1000 Genomes Project for plants, fungi, etc...
Let me get this straight: You basically are looking at Human haplotypes and looking for a method to measure A to G SNP variants? If you search for haplotypes here there will be lots of answers in regards to addressing haplotype variation.