User contributions for Atks

9 July 2013

• 15:4115:41, 9 July 2013 diff hist −11 Variant Normalization →Proof of left alignment
• 15:3515:35, 9 July 2013 diff hist +34 Variant Normalization →How to observe that a variant is not left aligned or parsimonious on the right side?
• 15:3315:33, 9 July 2013 diff hist +34 Variant Normalization →How to observe that a variant is not left aligned?
• 15:1315:13, 9 July 2013 diff hist −2 Variant Normalization →Normalization
• 15:1215:12, 9 July 2013 diff hist +292 Variant Normalization No edit summary
• 15:1115:11, 9 July 2013 diff hist +4 Variant Normalization No edit summary
• 15:1015:10, 9 July 2013 diff hist 0 Left alignment Redirected page to Variant Normalization current
• 15:0915:09, 9 July 2013 diff hist +35 N Left alignment Redirected page to Variant normalization
• 15:0815:08, 9 July 2013 diff hist +3,110 N Variant Normalization Created page with '= Introduction = Variant representation in Variant Call Format is non unique. We describe a variant normalization here that is parsimonious and left aligned. = Normalization =…'
• 14:4314:43, 9 July 2013 diff hist 0 N File:Variant normalization algorithm.png No edit summary
• 14:3214:32, 9 July 2013 diff hist 0 N File:Left alignment.png No edit summary current
• 14:2814:28, 9 July 2013 diff hist 0 N File:Left alignment.pdf No edit summary current

4 June 2013

• 13:4013:40, 4 June 2013 diff hist −1,681 HWEP Redirected page to Genotype Likelihood based Hardy-Weinberg Test current
• 13:3813:38, 4 June 2013 diff hist −2,329 AF Redirected page to Genotype Likelihood based Allele Frequency current
• 13:3713:37, 4 June 2013 diff hist −5 Genotype Likelihood based Inbreeding Coefficient →Introduction
• 13:3613:36, 4 June 2013 diff hist −2 Genotype Likelihood based Inbreeding Coefficient →Introduction
• 13:3213:32, 4 June 2013 diff hist +1,858 N Genotype Likelihood based Hardy-Weinberg Test Created page with '=== Introduction === This page details a Hardy-Weinberg Equilibrium test based on genotype likelihoods in NGS data. === Formulation === Hardy Weinberg equilibrium is expected …'
• 13:3013:30, 4 June 2013 diff hist −3 Genotype Likelihood based Allele Frequency →Introduction
• 13:2213:22, 4 June 2013 diff hist +2,213 N Genotype Likelihood based Inbreeding Coefficient Created page with '=== Introduction === Inbreeding Coefficients are an important statistic in the study of genetic variants. This page details EM algorithms to estimate inbreeding coefficients fro…'
• 13:2113:21, 4 June 2013 diff hist −35 FIC Redirected page to Genotype Likelihood based Inbreeding Coefficient current
• 13:2013:20, 4 June 2013 diff hist −1,901 FIC Redirected page to Https://statgen.sph.umich.edu/wiki/Genotype Likelihood based Inbreeding Coefficient
• 13:1313:13, 4 June 2013 diff hist +2,589 N Genotype Likelihood based Allele Frequency Created page with '=== Introduction === Allele frequencies are an important statistic in the study of genetic variants. This page details EM algorithms to estimate allele frequencies from genoty…'

18 May 2013

• 12:3612:36, 18 May 2013 diff hist −3,263 Vt Blanked the page

11 April 2013

• 14:1714:17, 11 April 2013 diff hist +29 FIC →Formulation
• 14:1614:16, 11 April 2013 diff hist +212 FIC →Formulation
• 14:1314:13, 11 April 2013 diff hist +22 FIC No edit summary
• 14:0514:05, 11 April 2013 diff hist −1 FIC No edit summary
• 14:0514:05, 11 April 2013 diff hist −27 HWEP →Derivation
• 14:0414:04, 11 April 2013 diff hist −4 AF →Derivation by
• 14:0314:03, 11 April 2013 diff hist +104 AF →Derivation by
• 14:0214:02, 11 April 2013 diff hist +11 AF →Estimation of Genotype Frequencies without assuming HWE
• 14:0114:01, 11 April 2013 diff hist +66 AF →Estimation of Genotype Frequencies without assuming HWE
• 13:5513:55, 11 April 2013 diff hist +14 FIC No edit summary
• 13:3513:35, 11 April 2013 diff hist −22 HWEP →Maintained by
• 13:3413:34, 11 April 2013 diff hist +54 HWEP →Maintained by
• 13:3413:34, 11 April 2013 diff hist +31 AF No edit summary
• 13:3313:33, 11 April 2013 diff hist −1 FIC No edit summary
• 11:0511:05, 11 April 2013 diff hist +20 AF →Estimation of Genotype Frequencies without assuming HWE
• 11:0411:04, 11 April 2013 diff hist +21 HWEP No edit summary
• 11:0311:03, 11 April 2013 diff hist −8 HWEP No edit summary
• 10:5810:58, 11 April 2013 diff hist +1,722 N HWEP Created page with 'Hardy Weinberg equilibrium is expected in a panmictic population. The following formulation is a likelihood ratio test statistic that incorporates the genotype uncertainty via g…'
• 10:3110:31, 11 April 2013 diff hist +110 FIC No edit summary
• 10:3010:30, 11 April 2013 diff hist +2,157 N AF Created page with '=== Estimation of Genotype Frequencies without assuming HWE === We propose an EM algorithm to estimate the genotype frequencies without assuming HWE. The posterior probability …'
• 08:3108:31, 11 April 2013 diff hist +1,613 N FIC Created page with 'Many data sets consist of individuals from different populations, in the cases of structured populations, this usually result in an increased number of homozygotes. The inbreedi…'

12 March 2013

• 21:2321:23, 12 March 2013 diff hist +1 Vt →Left Alignment
• 16:5816:58, 12 March 2013 diff hist +2 Vt →Filtering
• 16:5516:55, 12 March 2013 diff hist +93 Vt →Compute Feature
• 16:5316:53, 12 March 2013 diff hist +33 Vt →Filtering
• 16:3316:33, 12 March 2013 diff hist +489 Vt →Discovery
• 16:2616:26, 12 March 2013 diff hist −4 Vt No edit summary