How to filter out variants based on the population frequency
Hi All,
I have been asked to filter out variants based on the population frequency. In order to do this, should I use "AF-Allele Frequency" of my sample?
What is the significance of annotating VCF file with the allele frequency of ASN, AMR, AFR and EUR?
• 2,783 views
•
link
updated
by
shahimahdi57 •
•
written
by
bioinforesearchquestions
•
written
by
bioinforesearchquestions
1 answer
helo my friends,my english not very good but now i asswer you:we have very toos or site that you can use of them to filtering your data(vcf),for example population frequency,structure based,prediction,and evidence.and in population frequncy based you can use of 1000 genome project,NHLBI cohort and HAPMAP project....I hope I've been right my ansswer
• 0 views
•
link
written
by
shahimahdi57 •
Log in to answer this question.
More posts like this
-
Getting gnomAD allele frequencies for checking against populations
written by Peter •
-
Can LMM GWAS handle unequal sample sizes for ancestry?
written by Elizabeth •
-
GATK4 (4.1.2.0) Mutect2 --germline-resource option
written by romagnoli.simone •
-
Plink Logistic regression controlling for pop. structure in tri-hybrid admixed population
written by Guilherme •
-
imputation only choose one population as reference panel
written by Peter Chung
-
Should variant phasing be performed before or after filtering by Minor Allele Frequency?
written by i.wilson •
-
For multisample VCF, should I filter the variants based on allele depth (AD) or Overall depth ?
written by bioinforesearchquestions
-
In a locuszoom file, what does a column title "pp" contain?
written by LauferVA
-
Get alternate / total allele counts for 1000 Genomes super-populations
written by Sean
-
Programming Challenge: Quickest Way To Determine The "Superpopulation" From A Vcf?
written by Jeremy Leipzig
