I have a list of sequences and for every sequence there is a corresponding table that contains position-specific variants. To give you an example:
Here is a sequence:
And here is the corresponding variation information:
position variant_allele 11 C 12 G 18 A
Does anyone know of any straightforward tool (preferably a package in R) which can annotate these variants (whether the variant is synonymous/non-synonymous). I do not use/convert this information into a vcf file at any stage. Any help is appreciated!