I have merged.VCF(Around 45) file of a particular type of brain tumor sequenced from around ~45 patients. I have received only VCF files from the vendor and I don't have any .bam or .fasta/q files available. So my question is, can I apply any method/s or can I use any tool/s on the .vcf file to remove variants which are not significant or to identify driver mutations in cancer development.
Secondly, can I clean(filter out unwanted mutations/germ cell mutations)out these .vcfs. So that I will end up in mutations which are significant( I don't have .BAM/FASTQ file to apply stringent variant call and then create a cleaned .vcf)
Can you guys please suggest me any pipeline or tools available to carry out this analysis?
Thanks a lot for your help!