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Jump to navigationJump to search- 22:53, 15 February 2010 diff hist +42 N File:666.11.pdf Haplotyping Algorithms. February 16, 2010
- 22:48, 15 February 2010 diff hist +754 N Biostatistics 666: Haplotype Estimation Created page with '== Objective == This lecture introduces several strategies for estimating individual haplotypes and their frequencies. At heart, all population-based haplotyping algorithms look…'
- 22:42, 15 February 2010 diff hist +221 Biostatistics 666: Introduction to the E-M Algorithm
- 22:40, 15 February 2010 diff hist +72 Biostatistics 666: Main Page →Class Notes
- 09:46, 11 February 2010 diff hist 0 N File:666.10.pdf
- 06:15, 11 February 2010 diff hist +283 N Biostatistics 666: Introduction to the E-M Algorithm Created page with '== Objective == Introduce the E-M algorithm in genetics == Slides == Slide in PDF Format == Recommended Reading == Slatkin M, Excoffier L (1996) �Test…'
- 01:26, 11 February 2010 diff hist +4 Biostatistics 666: Advanced Coalescent, Changing Population Size
- 01:26, 11 February 2010 diff hist -387 Biostatistics 666: Advanced Coalescent, Computation with the Coalescent →Recommended Reading
- 01:25, 11 February 2010 diff hist +317 Biostatistics 666: Advanced Coalescent, Computation with the Coalescent
- 01:24, 11 February 2010 diff hist +642 N Biostatistics 666: Advanced Coalescent, Computation with the Coalescent Created page with '== Objective == == Slides == Slides in PDF format == Recommended Reading == Richard R. Hudson (1990) Gene genealogies and the coalescent process ''in'' O…'
- 01:23, 11 February 2010 diff hist -4 Biostatistics 666: Advanced Coalescent, Changing Population Size →Objectives
- 01:22, 11 February 2010 diff hist +6 Biostatistics 666: Advanced Coalescent, Changing Population Size →Notes
- 01:22, 11 February 2010 diff hist -1 Biostatistics 666: Advanced Coalescent, Changing Population Size →Guest Lecturer =
- 01:21, 11 February 2010 diff hist +334 N Biostatistics 666: Advanced Coalescent, Changing Population Size Created page with '== Guest Lecturer === This will be a guest lecture by Sebastian Zoellner, who is our department's resident expert on the coalescent.s == Objectives == Provide an introduction …'
- 01:19, 11 February 2010 diff hist +286 Biostatistics 666: Main Page →Class Notes
- 01:17, 11 February 2010 diff hist +123 N File:666.08.pdf Advanced guest lecture by Sebastian Zoellner. Focused on computation methods related to the coalescent. February 4, 2010. current
- 01:16, 11 February 2010 diff hist +156 N File:666.07.pdf Advanced lecture on the coalescent by guest lecturer, Sebastian Zoellner. Focused on coalescent modeling with changing population sizes. February 2, 2009. current
- 12:01, 9 February 2010 diff hist 0 File:666.09.pdf uploaded a new version of "File:666.09.pdf": Fixed minor typos. February 9, 2010
- 04:59, 9 February 2010 diff hist +6 Biostatistics 666: Modeling Variation in the Coalescent →Slides
- 04:58, 9 February 2010 diff hist 0 Biostatistics 666: Modeling Variation in the Coalescent →Slides
- 04:58, 9 February 2010 diff hist +6 Biostatistics 666: Modeling Recombination and Migration in the Coalescent →Slides
- 04:57, 9 February 2010 diff hist +6 Biostatistics 666: Maximum Likelihood Allele Frequency Estimation →Slides
- 04:57, 9 February 2010 diff hist 0 Biostatistics 666: Maximum Likelihood Allele Frequency Estimation →Slides
- 04:57, 9 February 2010 diff hist +712 N Biostatistics 666: Maximum Likelihood Allele Frequency Estimation Created page with '== Objective == This lecture examines maximum likelihood based estimation of allele frequencies in several simple settings, such as estimation of allele frequencies from samples…'
- 04:49, 9 February 2010 diff hist +189 N File:666.09.pdf This lecture reviews maximum likelihood estimation and applies maximum likelihood concepts to derive estimates of allele frequency in several simple settings. Last update February 9, 2010.
- 04:48, 9 February 2010 diff hist +1 Biostatistics 666: Main Page →Class Notes
- 04:48, 9 February 2010 diff hist +97 Biostatistics 666: Main Page →Class Notes
- 15:53, 2 February 2010 diff hist -60 MediaWiki:Sidebar
- 15:52, 2 February 2010 diff hist +31 MediaWiki:Sidebar
- 15:51, 2 February 2010 diff hist 0 MediaWiki:Sidebar
- 15:50, 2 February 2010 diff hist +242 N MediaWiki:Sidebar Created page with '* navigation ** mainpage|mainpage-description ** portal-url|portal ** currentevents-url|currentevents ** recentchanges-url|recentchanges ** randompage-url|randompage ** helppage|…'
- 15:28, 2 February 2010 diff hist +31 Evaluating a Read Mapper on Simulated Data
- 15:17, 2 February 2010 diff hist +128 Evaluating a Read Mapper on Simulated Data →Grouping
- 15:05, 2 February 2010 diff hist +1,393 N Evaluating a Read Mapper on Simulated Data Created page with '== Grouping == When evaluating read mappers, we should always focus on well defined sets of reads: * Reads with no polymorphisms. * Reads with 1, 2, 3 or more SNPs. * Reads wit…'
- 13:06, 28 January 2010 diff hist 0 Links to Sequence Analysis Tools →Base Calling Tools
- 13:06, 28 January 2010 diff hist +796 Links to Sequence Analysis Tools
- 04:23, 28 January 2010 diff hist +60 N File:666.06.pdf Coalescent with Recombination or Migration January 26, 2010
- 03:05, 28 January 2010 diff hist -1 Biostatistics 666: Modeling Recombination and Migration in the Coalescent →Recommended Reading
- 02:46, 28 January 2010 diff hist +11 Biostatistics 666: Modeling Recombination and Migration in the Coalescent →Objective
- 02:45, 28 January 2010 diff hist +227 Biostatistics 666: Modeling Recombination and Migration in the Coalescent
- 02:44, 28 January 2010 diff hist +1 Biostatistics 666: Modeling Recombination and Migration in the Coalescent →Recommended Reading
- 02:43, 28 January 2010 diff hist +543 Biostatistics 666: Modeling Recombination and Migration in the Coalescent →Recommended Reading
- 02:37, 28 January 2010 diff hist +56 N Biostatistics 666: Modeling Recombination and Migration in the Coalescent Created page with '== Objective == == Slides == == Recommended Reading =='
- 02:36, 28 January 2010 diff hist +106 Biostatistics 666: Main Page →Class Notes
- 02:21, 26 January 2010 diff hist +215 Biostatistics 666: Modeling Variation in the Coalescent →Recommended Reading
- 02:20, 26 January 2010 diff hist +407 N Biostatistics 666: Modeling Variation in the Coalescent Created page with '== Objective == This class builds on previous descriptions of the coalescent. In the class we model the impact of mutations on the coalescent and use it to study: * What is the…'
- 02:15, 26 January 2010 diff hist +214 N File:666.05.pdf This lecture covers three concepts: * Estimating theta using sequence data as input. * Modeling frequency spectra using simulations * Analytically modeling the distribution of total variant count January 26, 2010
- 02:12, 26 January 2010 diff hist +88 Biostatistics 666: Main Page →Class Notes
- 11:36, 21 January 2010 diff hist +141 N Links to Sequence Analysis Tools Created page with ' http://www.broadinstitute.org/gsa/wiki/index.php/Base_quality_score_recalibration Quality Score Calibration Tool at the Broad Institute.'
- 11:35, 21 January 2010 diff hist +65 Main Page →Sequence Analysis Tools
- 11:31, 21 January 2010 diff hist +108 Main Page →Miscellaneous Utilities
- 11:29, 21 January 2010 diff hist +2 Read Mapping
- 11:28, 21 January 2010 diff hist +505 N Read Mapping Created page with '== Read mappers that we like are == [http://bio-bwa.sourceforge.net BWA] - A much faster aligner developed by Richard Durbin and Heng Li. Karma - Currently under development…'
- 11:23, 21 January 2010 diff hist +4 Main Page →Read Mapping
- 09:37, 21 January 2010 diff hist +49 N File:666.04.pdf Introduction to the Coalescent. January 21, 2010
- 04:23, 19 January 2010 diff hist 0 File:666.03.pdf uploaded a new version of "File:666.03.pdf": Introduction to Linkage Disequilibrium. Further tweaks as of January 19, 2010. The lecture is presently too long and should be split into two.
- 03:13, 19 January 2010 diff hist 0 File:666.03.pdf uploaded a new version of "File:666.03.pdf": Updated Lecture Notes, as of January 19, 2010.
- 01:44, 19 January 2010 diff hist +412 N Biostatistics 666: Introduction to the Coalescent Created page with '== Objective == Introduce the coalescent as a practical means to model the properties of alleles in a population. == Slides == Slides in PDF Format == Ba…'
- 01:37, 19 January 2010 diff hist +82 Biostatistics 666: Main Page →Class Notes
- 08:44, 14 January 2010 diff hist +95 N File:666.03.pdf Introduces Measures of Linkage Disequibrium and Related Concepts Last updated January 14, 2010
- 07:56, 14 January 2010 diff hist +311 Biostatistics 666: Linkage Disequilibrium →Objective
- 07:54, 14 January 2010 diff hist +840 N Biostatistics 666: Linkage Disequilibrium Created page with '== Objective == == Slides == Slides in PDF Format == Background Reading == Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Diblin…'
- 07:37, 14 January 2010 diff hist +74 Biostatistics 666: Main Page →Class Notes
- 10:55, 13 January 2010 diff hist +493 FastQValidator
- 10:52, 13 January 2010 diff hist 0 Main Page →Miscellaneous Utilities
- 10:52, 13 January 2010 diff hist +29 N FastQ validator moved FastQ validator to FastQ Validator current
- 10:52, 13 January 2010 diff hist 0 m FastQValidator moved FastQ validator to FastQ Validator
- 10:51, 13 January 2010 diff hist 0 Main Page →Miscellaneous Utilities
- 10:50, 13 January 2010 diff hist +108 Main Page →Sequence Analysis Tools
- 10:44, 13 January 2010 diff hist +44 FastQValidator
- 02:49, 12 January 2010 diff hist +22 Biostatistics 666: Hardy-Weinberg Equilibrium →Objective
- 02:49, 12 January 2010 diff hist +451 Biostatistics 666: Hardy-Weinberg Equilibrium
- 02:45, 12 January 2010 diff hist +19 Biostatistics 666: Hardy-Weinberg Equilibrium →Slides
- 02:44, 12 January 2010 diff hist +2 Biostatistics 666: Main Page →Class Notes
- 02:44, 12 January 2010 diff hist -1 Biostatistics 666: Main Page →Class Notes
- 02:44, 12 January 2010 diff hist -2 Biostatistics 666: Main Page →Class Notes
- 02:44, 12 January 2010 diff hist +28 Biostatistics 666: Main Page →Class Notes
- 02:43, 12 January 2010 diff hist +55 N File:666.02.pdf Lecture on Hardy Weinberg Equilibrium January 12, 2009
- 11:28, 7 January 2010 diff hist +6 Biostatistics 666: Main Page →Office Hours
- 10:05, 7 January 2010 diff hist +54 Biostatistics 666: Main Page
- 00:40, 7 January 2010 diff hist +27 Biostatistics 666: Main Page →Class Notes
- 00:38, 7 January 2010 diff hist +1 Biostatistics 666: Introductory Lecture →Slides
- 00:28, 7 January 2010 diff hist +42 Biostatistics 666: Introductory Lecture →Slides
- 00:26, 7 January 2010 diff hist +56 N File:666.01.pdf Biostatistics 666 Introductory Lecture as of 2010/01/06.
- 00:25, 7 January 2010 diff hist +899 Biostatistics 666: Main Page
- 23:54, 6 January 2010 diff hist +41 Biostatistics 666: Hardy-Weinberg Equilibrium
- 23:53, 6 January 2010 diff hist +300 N Biostatistics 666: Introductory Lecture Created page with '== Objective == This lecture introduces course objectives, which are to provide students with a working understanding of the techniques commonly used by statistical geneticists.…'
- 23:50, 6 January 2010 diff hist +195 N Biostatistics 666: Hardy-Weinberg Equilibrium Created page with '== Background Reading == Please read the following paper: Wigginton JE, Cutler DJ and Abecasis GR (2005). A note on exact tests of Hardy-Weinberg equilibrium. ''Am J Hum Genet'…'
- 23:48, 6 January 2010 diff hist +51 Biostatistics 666: Main Page →Class Notes
- 23:47, 6 January 2010 diff hist +42 N 666 Redirected page to Biostatistics 666: Main Page current
- 23:45, 6 January 2010 diff hist +397 Biostatistics 666: Main Page
- 23:42, 6 January 2010 diff hist +45 Biostatistics 666: Main Page →Class Notes
- 23:41, 6 January 2010 diff hist +765 N Biostatistics 666: Main Page Created page with '== Objective == Gene mapping studies aim to study the relationship between genetic variation and susceptibility to human disease. These studies can be used to elucidate the bioc…'
- 23:39, 6 January 2010 diff hist -28 Class Notes
- 23:35, 6 January 2010 diff hist +263 Class Notes
- 23:31, 6 January 2010 diff hist +15 Class Notes →BIOSTAT 666 Statistical and Numerical Methods in Human Genetics
- 23:31, 6 January 2010 diff hist +537 N Class Notes Created page with '== BIOSTAT 666 Statistical and Numerical Methods in Human Genetics == Gene mapping studies aim to study the relationship between genetic variation and suscepti…'
- 23:30, 6 January 2010 diff hist -576 Main Page →Learn Genetics
- 23:28, 6 January 2010 diff hist +743 Main Page
- 02:52, 19 December 2009 diff hist +34 SAM