User contributions for Albrecht

5 March 2014

• 18:0518:05, 5 March 2014 diff hist +405‎ Beagle input ‎ →‎output
• 17:5917:59, 5 March 2014 diff hist −29‎ Beagle input ‎ →‎Example
• 17:5817:58, 5 March 2014 diff hist +139‎ Beagle input ‎No edit summary
• 17:5417:54, 5 March 2014 diff hist −45‎ SNP calling ‎No edit summary

26 February 2014

• 19:0419:04, 26 February 2014 diff hist +11‎ SNP calling ‎No edit summary
• 17:4317:43, 26 February 2014 diff hist −43‎ Allele Frequencies ‎ →‎.mafs
• 17:4317:43, 26 February 2014 diff hist −1‎ Allele Frequencies ‎ →‎.mafs
• 17:4317:43, 26 February 2014 diff hist +8‎ Allele Frequencies ‎ →‎.mafs
• 17:4017:40, 26 February 2014 diff hist +105‎ Allele Frequencies ‎ →‎.mafs
• 17:3717:37, 26 February 2014 diff hist −606‎ Allele Frequencies ‎ →‎.mafs
• 17:3617:36, 26 February 2014 diff hist +44‎ Allele Frequencies ‎ →‎Allele Frequency estimation
• 17:3617:36, 26 February 2014 diff hist +974‎ N SYKmaf ‎ Created page with "==ML estimator with known minor== First infer the Major and Minor allele and then use BFGS (-doMaf 1) optimazation or the EM algorithm (..."
• 17:3517:35, 26 February 2014 diff hist +41‎ Allele Frequencies ‎ →‎Allele Frequency estimation
• 17:3517:35, 26 February 2014 diff hist −985‎ Allele Frequencies ‎ →‎Theory
• 17:3417:34, 26 February 2014 diff hist +64‎ Allele Frequencies ‎No edit summary
• 17:3217:32, 26 February 2014 diff hist +11‎ User:Thorfinn ‎No edit summary
• 17:3217:32, 26 February 2014 diff hist +867‎ User:Thorfinn ‎ →‎Anders changes to version 583
• 17:1317:13, 26 February 2014 diff hist +330‎ User:Thorfinn ‎No edit summary
• 16:4716:47, 26 February 2014 diff hist +57‎ Allele Frequencies ‎ →‎Example
• 16:4616:46, 26 February 2014 diff hist −19‎ Allele Frequencies ‎No edit summary
• 16:4516:45, 26 February 2014 diff hist −420‎ Allele Frequencies ‎No edit summary
• 16:4416:44, 26 February 2014 diff hist +395‎ N PostFreq ‎ Created page with "==Estimator from genotype probabilities== If the genotype probabilities are known the frequencies can be estimated by summing up the posterior probabilities <math> p(G=g|D)</..." current
• 16:4416:44, 26 February 2014 diff hist −93‎ Allele Frequencies ‎No edit summary
• 16:4116:41, 26 February 2014 diff hist +5‎ Allele Frequencies ‎ →‎Example
• 16:3916:39, 26 February 2014 diff hist +824‎ Allele Frequencies ‎No edit summary
• 16:2516:25, 26 February 2014 diff hist +254‎ Error estimation ‎No edit summary
• 16:2316:23, 26 February 2014 diff hist −75‎ Error estimation ‎ →‎Theory
• 16:2116:21, 26 February 2014 diff hist +15‎ Error estimation ‎ →‎Example
• 16:1916:19, 26 February 2014 diff hist +34‎ Error estimation ‎ →‎Options
• 16:1816:18, 26 February 2014 diff hist +15‎ Error estimation ‎ →‎Options
• 16:1616:16, 26 February 2014 diff hist +314‎ Error estimation ‎ →‎Error estimation using an outgroup and an error free individual
• 16:1516:15, 26 February 2014 diff hist +2,063‎ N ErrorPerfect ‎ Created page with "==Method 2== The method was use in Orlando2013 and is described in details in supplementary 4.4 The estimated rates can roughly be intrepreted as relative error rates. T..." current
• 16:1316:13, 26 February 2014 diff hist +28‎ Error estimation ‎ →‎Error estimation using an outgroup and an error free individual
• 16:1316:13, 26 February 2014 diff hist −2,065‎ Error estimation ‎ →‎Method 2
• 16:1216:12, 26 February 2014 diff hist −13‎ ErrorSykMethod ‎No edit summary current
• 16:1216:12, 26 February 2014 diff hist +854‎ N ErrorSykMethod ‎ Created page with "==Method 1== The method is described in kim2011 and work by simultaneously estimating allele frequencies, genotype likelihoods and the error rates. The likelihood of t..."
• 16:1216:12, 26 February 2014 diff hist +69‎ Error estimation ‎ →‎Error estimation from polymorphic sites
• 16:1116:11, 26 February 2014 diff hist −856‎ Error estimation ‎ →‎Method 1
• 16:0816:08, 26 February 2014 diff hist +48‎ Error estimation ‎ →‎Output
• 16:0216:02, 26 February 2014 diff hist 0‎ Error estimation ‎No edit summary
• 15:1715:17, 26 February 2014 diff hist +1‎ Error estimation ‎No edit summary
• 15:1615:16, 26 February 2014 diff hist +11‎ Error estimation ‎ →‎Example
• 15:1215:12, 26 February 2014 diff hist +280‎ Error estimation ‎No edit summary
• 15:0715:07, 26 February 2014 diff hist +16‎ Error estimation ‎No edit summary
• 14:3314:33, 26 February 2014 diff hist 0‎ Major Minor ‎No edit summary
• 14:2914:29, 26 February 2014 diff hist +503‎ Major Minor ‎No edit summary
• 14:2314:23, 26 February 2014 diff hist +256‎ Major Minor ‎ →‎Details
• 14:1914:19, 26 February 2014 diff hist −29‎ Major Minor ‎ →‎From counts of data
• 14:1914:19, 26 February 2014 diff hist −1‎ Major Minor ‎ →‎From genotype likelihood data
• 14:1514:15, 26 February 2014 diff hist +1,283‎ N MajorMinor Method ‎ Created page with "==From Genotype Likelihoods== Assuming that the considered site is diallelic, we infer those two alleles using the genotype likelihoods. Let <math>\{M,m\}</math> denote the tw..." current