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Jump to navigationJump to search- 15:33, 9 July 2013 diff hist +34 Variant Normalization →How to observe that a variant is not left aligned?
- 15:13, 9 July 2013 diff hist -2 Variant Normalization →Normalization
- 15:12, 9 July 2013 diff hist +292 Variant Normalization
- 15:11, 9 July 2013 diff hist +4 Variant Normalization
- 15:10, 9 July 2013 diff hist 0 Left alignment Redirected page to Variant Normalization current
- 15:09, 9 July 2013 diff hist +35 N Left alignment Redirected page to Variant normalization
- 15:08, 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 =…'
- 14:43, 9 July 2013 diff hist 0 N File:Variant normalization algorithm.png
- 14:32, 9 July 2013 diff hist 0 N File:Left alignment.png current
- 14:28, 9 July 2013 diff hist 0 N File:Left alignment.pdf current
- 13:40, 4 June 2013 diff hist -1,681 HWEP Redirected page to Genotype Likelihood based Hardy-Weinberg Test current
- 13:38, 4 June 2013 diff hist -2,329 AF Redirected page to Genotype Likelihood based Allele Frequency current
- 13:37, 4 June 2013 diff hist -5 Genotype Likelihood based Inbreeding Coefficient →Introduction
- 13:36, 4 June 2013 diff hist -2 Genotype Likelihood based Inbreeding Coefficient →Introduction
- 13:32, 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 …'
- 13:30, 4 June 2013 diff hist -3 Genotype Likelihood based Allele Frequency →Introduction
- 13:22, 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…'
- 13:21, 4 June 2013 diff hist -35 FIC Redirected page to Genotype Likelihood based Inbreeding Coefficient current
- 13:20, 4 June 2013 diff hist -1,901 FIC Redirected page to Https://statgen.sph.umich.edu/wiki/Genotype Likelihood based Inbreeding Coefficient
- 13:13, 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…'
- 12:36, 18 May 2013 diff hist -3,263 Vt Blanked the page
- 14:17, 11 April 2013 diff hist +29 FIC →Formulation
- 14:16, 11 April 2013 diff hist +212 FIC →Formulation
- 14:13, 11 April 2013 diff hist +22 FIC
- 14:05, 11 April 2013 diff hist -1 FIC
- 14:05, 11 April 2013 diff hist -27 HWEP →Derivation
- 14:04, 11 April 2013 diff hist -4 AF →Derivation by
- 14:03, 11 April 2013 diff hist +104 AF →Derivation by
- 14:02, 11 April 2013 diff hist +11 AF →Estimation of Genotype Frequencies without assuming HWE
- 14:01, 11 April 2013 diff hist +66 AF →Estimation of Genotype Frequencies without assuming HWE
- 13:55, 11 April 2013 diff hist +14 FIC
- 13:35, 11 April 2013 diff hist -22 HWEP →Maintained by
- 13:34, 11 April 2013 diff hist +54 HWEP →Maintained by
- 13:34, 11 April 2013 diff hist +31 AF
- 13:33, 11 April 2013 diff hist -1 FIC
- 11:05, 11 April 2013 diff hist +20 AF →Estimation of Genotype Frequencies without assuming HWE
- 11:04, 11 April 2013 diff hist +21 HWEP
- 11:03, 11 April 2013 diff hist -8 HWEP
- 10:58, 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…'
- 10:31, 11 April 2013 diff hist +110 FIC
- 10:30, 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 …'
- 08:31, 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…'
- 21:23, 12 March 2013 diff hist +1 Vt →Left Alignment
- 16:58, 12 March 2013 diff hist +2 Vt →Filtering
- 16:55, 12 March 2013 diff hist +93 Vt →Compute Feature
- 16:53, 12 March 2013 diff hist +33 Vt →Filtering
- 16:33, 12 March 2013 diff hist +489 Vt →Discovery
- 16:26, 12 March 2013 diff hist -4 Vt
- 16:22, 12 March 2013 diff hist +116 Vt →compute_
- 16:19, 12 March 2013 diff hist +133 Vt →Introduction
- 16:18, 12 March 2013 diff hist +588 Vt →Left Alignment
- 16:11, 12 March 2013 diff hist +1,812 N Vt Created page with '=== Introduction === vt is a tool set that calls, genotypes and filters short variants. It provides profiling of variants to aid in QC. === Discovery === Discovery is perform…'
- 15:12, 2 November 2012 diff hist +53 N IGFPipe Created page with 'IGFPipe Pipeline for INDEL Genotyping and Filtering' current
- 18:38, 2 February 2012 diff hist +209 Arf →In development/Pending update current
- 18:26, 2 February 2012 diff hist +15 Arf →In development
- 18:23, 2 February 2012 diff hist -11 Arf →In development
- 18:19, 2 February 2012 diff hist -15 Arf →In development
- 18:19, 2 February 2012 diff hist +15 Arf →In development
- 18:18, 2 February 2012 diff hist -12 Arf →In development
- 18:16, 2 February 2012 diff hist +42 Arf →In development
- 18:15, 2 February 2012 diff hist +219 Arf →In development
- 17:05, 27 January 2012 diff hist -3 Arf →Download
- 17:04, 27 January 2012 diff hist +9 Arf →Download
- 15:47, 27 January 2012 diff hist -189 Arf →In development
- 14:35, 27 January 2012 diff hist +80 Arf →In development
- 14:34, 27 January 2012 diff hist +57 Arf →In development
- 14:28, 27 January 2012 diff hist +308 Arf →Command Line Options
- 13:46, 27 January 2012 diff hist +31 Arf →Command Line Options
- 23:37, 25 January 2012 diff hist -1 Arf →Basic Usage Example
- 23:36, 25 January 2012 diff hist +1 Arf →Basic Usage Example
- 23:36, 25 January 2012 diff hist +152 Arf →Basic Usage Example
- 23:35, 25 January 2012 diff hist +392 Arf →Basic Usage Example
- 21:31, 25 January 2012 diff hist +1 Arf →Basic Usage Example
- 20:01, 25 January 2012 diff hist +30 Arf →Command Line Options
- 18:15, 25 January 2012 diff hist +177 Arf →Download
- 18:02, 25 January 2012 diff hist -59 Arf →Description
- 18:02, 25 January 2012 diff hist +58 Arf →Command Line Options
- 18:01, 25 January 2012 diff hist +17 Arf →Basic Usage Example
- 15:07, 24 January 2012 diff hist -4 Arf →Basic Usage Example
- 21:33, 23 January 2012 diff hist +1 Arf →Basic Usage Example
- 21:32, 23 January 2012 diff hist -168 Arf →Basic Usage Example
- 21:32, 23 January 2012 diff hist -33 Arf →Basic Usage Example
- 21:30, 23 January 2012 diff hist +54 Arf →Command Line Options
- 21:29, 23 January 2012 diff hist -19 Arf →Output
- 17:15, 23 January 2012 diff hist +343 Arf →Basic Usage Example
- 17:12, 23 January 2012 diff hist 0 Arf →Command Line Options
- 17:11, 23 January 2012 diff hist +4 Arf →Download
- 17:11, 23 January 2012 diff hist +4 Vmatch →Download current
- 16:58, 23 January 2012 diff hist -51 Vmatch →Download
- 16:54, 23 January 2012 diff hist -48 Arf →Download
- 11:48, 19 January 2012 diff hist -74 Vpeep →Output current
- 11:48, 19 January 2012 diff hist +1 Vpeep →Output
- 11:48, 19 January 2012 diff hist +1 Vpeep →Output
- 11:48, 19 January 2012 diff hist +206 Vpeep →Output
- 11:47, 19 January 2012 diff hist +2,317 N Vpeep Created page with 'Category:Software '''vpeep''' checks the distribution in a VCF file. == Basic Usage Example == vpeep <vcf-file> example: vpeep pscalare.vcf == Output == user…'
- 18:35, 18 January 2012 diff hist -23 Arf →Output
- 11:41, 18 January 2012 diff hist 0 Arf →Output
- 11:40, 18 January 2012 diff hist -31 Arf →Command Line Options
- 11:40, 18 January 2012 diff hist 0 Arf →Basic Usage Example
- 11:40, 18 January 2012 diff hist 0 Arf →Basic Usage Example