Entering edit mode
8.5 years ago
kv.shamsudheen
•
0
Dear All,
Is there any tool/standard method to plot all variation frequencies together in each position of a gene from different population. I have extracted the positions from the VCF files (1000Genome) and need to plot on the gene. I have calculated the frequencies as follows by using vcftools
CHROM POS N_ALLELES N_CHR {ALLELE:FREQ} 17 64298926 2 1788 G:0.998322 A:0.00167785 17 64298927 2 1788 G:1 T:0 17 64298992 2 1788 A:0.999441 G:0.000559284 17 64299103 2 1788 A:1 G:0 17 64299131 2 1788 C:1 T:0 17 64299150 2 1788 C:1 T:0 17 64299169 2 1788 C:1 G:0 17 64299317 2 1788 G:0.999441 C:0.000559284
Please help me how to plot this for in each position for all variant frequencies