User contributions for Goncalo

20 January 2012

• 05:4205:42, 20 January 2012 diff hist +236 Tutorial: Low Pass Sequence Analysis →Example Dataset

7 December 2011

• 04:4904:49, 7 December 2011 diff hist +92 N File:666.24.pdf Introduction to likelihood calculations in large pedigrees and the Elston Stewart algorithm.
• 04:4804:48, 7 December 2011 diff hist +257 N Biostatistics 666: Likelihood Calculations for Large Pedigrees Created page with '== Outline == This lecture introduces an alternative formulation of the pedigree likelihood, that does not rely on summation over IBD states. The lecture also introduces the Els…' current
• 04:4704:47, 7 December 2011 diff hist +95 Biostatistics 666: Main Page →Class Notes
• 04:2004:20, 7 December 2011 diff hist 0 File:666.2011.01.pdf uploaded a new version of "File:666.2011.01.pdf": Corrected small typos.
• 04:1904:19, 7 December 2011 diff hist 0 File:666.2011.02.pdf uploaded a new version of "File:666.2011.02.pdf": Corrected small typos.

5 December 2011

• 09:1409:14, 5 December 2011 diff hist +5 Biostatistics 666: Analysis of Copy Number Using Sequence Data →Recommended Reading current
• 09:1309:13, 5 December 2011 diff hist +50 N File:666.2011.02.pdf Copy Number Variation Analysis Using Sequence Data
• 09:1309:13, 5 December 2011 diff hist +524 N Biostatistics 666: Analysis of Copy Number Using Sequence Data Created page with '== Overview == Introduces the analysis of copy number variation using next generation sequence data, discussing the types of evidence that can be observed in one individual and …'
• 09:1109:11, 5 December 2011 diff hist +100 Biostatistics 666: Main Page →Class Notes

30 November 2011

• 07:4807:48, 30 November 2011 diff hist +2 Biostatistics 666: Rare Variant Burden Tests →Recommended Reading current
• 07:4807:48, 30 November 2011 diff hist +551 N Biostatistics 666: Rare Variant Burden Tests Created page with '== Objective == Discussion of the challenges involved in the analysis of rare variation. Introduces basic burden tests, discusses the benefits of different variant weighting sch…'
• 07:4407:44, 30 November 2011 diff hist +82 Biostatistics 666: Main Page →Class Notes
• 07:4307:43, 30 November 2011 diff hist +61 N File:666.2011.01.pdf Introduction to Rare Variant Burden Tests and Related Issues.

28 November 2011

• 05:5905:59, 28 November 2011 diff hist 0 File:666.2010.05.pdf uploaded a new version of "File:666.2010.05.pdf": Added Sardinia example and discussion of consensus genotype calling.
• 04:2504:25, 28 November 2011 diff hist 0 File:666.2010.03.pdf uploaded a new version of "File:666.2010.03.pdf": Fixes several small typos in worked imputation examples.

23 November 2011

• 07:4907:49, 23 November 2011 diff hist 0 File:666.2010.04.pdf uploaded a new version of "File:666.2010.04.pdf": Updates to introduce base quality, mapping quality and base alignment quality.

21 November 2011

• 06:5506:55, 21 November 2011 diff hist 0 File:666.17.pdf uploaded a new version of "File:666.17.pdf": Minor updates to figures.
• 06:5406:54, 21 November 2011 diff hist 0 File:666.16.pdf uploaded a new version of "File:666.16.pdf": Minor updates to figures.
• 06:5406:54, 21 November 2011 diff hist 0 File:666.2010.03.pdf uploaded a new version of "File:666.2010.03.pdf": Minor cosmetic updates.

16 November 2011

• 07:1707:17, 16 November 2011 diff hist 0 File:666.20.pdf uploaded a new version of "File:666.20.pdf": This version removes page numbers (a visual nuisance) and adds a mention of approaches that use empirical, rather than pedigree based, kinship coefficients.
• 07:1507:15, 16 November 2011 diff hist 0 File:666.20.pdf uploaded a new version of "File:666.20.pdf"

9 November 2011

• 08:0108:01, 9 November 2011 diff hist 0 File:666.16.pdf uploaded a new version of "File:666.16.pdf": Fixed typos, added example of age-related macular degeneration linkage study.

7 November 2011

• 17:5317:53, 7 November 2011 diff hist +76 Exome Chip Design →Grunt Work
• 05:1205:12, 7 November 2011 diff hist 0 File:666.2010.02.pdf uploaded a new version of "File:666.2010.02.pdf": Simplified lecture to make it fit more easily into one hour.

3 November 2011

• 17:4317:43, 3 November 2011 diff hist +31 MediaWiki:Common.css No edit summary current
• 17:3817:38, 3 November 2011 diff hist +185 Code Sample: Generating QQ Plots in R →Sample Usage
• 17:3417:34, 3 November 2011 diff hist +66 Code Sample: Generating QQ Plots in R →R Lattice Graphics
• 17:3017:30, 3 November 2011 diff hist +31,589 N MediaWiki:Common.css Created page with '→CSS placed here will be applied to all skins: →Copied verbatim from en.wikipedia.org/wiki/MediaWiki:Common.css: #interwiki-completelist { font-weight: bold; } bod…'

2 November 2011

• 07:0307:03, 2 November 2011 diff hist +82 Biostatistics 666: Main Page →Older Lectures
• 07:0207:02, 2 November 2011 diff hist −82 Biostatistics 666: Main Page →Class Notes

1 November 2011

• 11:4911:49, 1 November 2011 diff hist +7 Code Sample: Generating QQ Plots in R No edit summary
• 11:4411:44, 1 November 2011 diff hist +209 N MediaWiki:Geshi.css Created page with '→CSS placed here will be applied to GeSHi syntax highlighting: div.mw-geshi div, pre { padding: 1em; margin: 1em 0; border: 1px dashed #2f6fab; font-family: monospa…' current

31 October 2011

• 16:4116:41, 31 October 2011 diff hist +8,486 N Code Sample: Generating QQ Plots in R Created page with 'Quantile-quantile plots (qq-plots) can be useful for verifying that a set of values come from a certain distribution. For example in a genome-wide association study, we expect th…'
• 16:4016:40, 31 October 2011 diff hist +14 N File:Pval-qq-sample.png Sample QQ Plot current

28 October 2011

• 11:4511:45, 28 October 2011 diff hist +69 Biostatistics 666: Main Page →Problem Set Solutions
• 11:4411:44, 28 October 2011 diff hist +29 Biostatistics 666: Main Page →Office Hours
• 11:4311:43, 28 October 2011 diff hist +34 Biostatistics 666: Main Page →Office Hours
• 11:4211:42, 28 October 2011 diff hist −76 Biostatistics 666: Main Page →Scheduling
• 10:0910:09, 28 October 2011 diff hist +234 Nm User talk:Clement Ma Welcome! current
• 10:0910:09, 28 October 2011 diff hist +353 Nm User:Clement Ma Creating user page with biography of new user. current

24 October 2011

• 02:2202:22, 24 October 2011 diff hist 0 File:666.12.pdf uploaded a new version of "File:666.12.pdf": Added ACE gene example

18 October 2011

• 09:5409:54, 18 October 2011 diff hist +325 N Talk:Minimac: 1000 Genomes Imputation Cookbook Created page with 'Issues to resolve: * No --prefix in MACH example command line (both for single job and in parallel) * Should make sure MACH output is gzipped (I think Yun has enabled this by de…' current
• 09:5009:50, 18 October 2011 diff hist 0 IMPUTE2: 1000 Genomes Imputation Cookbook →Imputation

10 October 2011

• 09:4809:48, 10 October 2011 diff hist −1 Exome Chip Design →Online Content
• 09:4709:47, 10 October 2011 diff hist +314 Exome Chip Design →Online Content
• 09:4609:46, 10 October 2011 diff hist −2 Exome Chip Design →Online Content
• 09:4609:46, 10 October 2011 diff hist 0 Exome Chip Design →Online Content
• 09:4509:45, 10 October 2011 diff hist +33 Exome Chip Design →Online Content
• 09:4509:45, 10 October 2011 diff hist 0 Exome Chip Design →Online Content