Changes between Version 19 and Version 20 of SOPs/vcf


Ignore:
Timestamp:
07/27/16 11:46:34 (9 years ago)
Author:
thiruvil
Comment:

--

Legend:

Unmodified
Added
Removed
Modified

  • SOPs/vcf

    v19 v20  
    9090
    9191* Assess Hardy-Weinberg Equilibrium (HWE) using an exact test, deviation from HWE may indicate selection, population mixing or non-random mating, see [[http://www.ncbi.nlm.nih.gov/pubmed/7498780 | PMID 7498780 ]] for more details.
    92   * Use [[https://vcftools.github.io/index.html | vcftools]] option "--hardy" to report a p-value for each site to assess deviation from HWE.  VCF file must have genotypes of individuals explicitly reported.
     92  * Use [[https://vcftools.github.io/index.html | vcftools]] option "--hardy" to report a p-value for each site to assess deviation from HWE. 
    9393{{{
     94#VCF file must have genotypes of individuals explicitly reported
    9495vcftools --vcf myVariants.vcf --hardy --out myVariantsHWE
    9596}}}