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Statistical genetics and population genetics at the bioinformatics center

Anders Albrechtsen

http://www.popgen.dk/

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Statistical genetics and population genetics at the bioinformatics center | popgen.dk Reviews

https://popgen.dk

Anders Albrechtsen

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1

Summer course in human population genetics

http://popgen.dk/albrecht/web/summer.html

Summer course in human population genetics. ME ME ME ME. Phd course in analyses of genotyping and NGS data in medical and population genetics - Copenhagen 2016. Human Population Genetics Course - Shenzhen China 2013. Human Population Genetics Course - Copenhagen 2012. Human Population Genetics Course - Copenhagen 2011. Human Population Genetics Course - Copenhagen 2010. Human Population Genetics Course - Copenhagen 2009. Comparative genomic analysis - Copenhagen 2008. Website no longer available.

2

NgsAdmix - software

http://popgen.dk/software/index.php/NgsAdmix

This page contains information about the program called NGSadmix, which is a very nice tool for finding admixture proportions from NGS data. It is based on genotype likelihoods. It is a fancy multithreaded c/c program. We really like it. Latest version is 32 from June 25 2013. It can be found [1]. Older versions can be found here: [2]. Method is published and can be found here: [3]. Log file (.log). Allele frequency ouput (.fopt). Admixture proportion output file (.qopt). For easy transformation of Next-...

3

RelateAdmix - software

http://popgen.dk/software/index.php/RelateAdmix

Installation of R package. Installation of C program. Run example using R. Run example using C. As shown in the example of how to use the C interface. Both the C and R versions of the program have been made for linux but should work on other unix like systems. You need to have zlib installed. Some MAC users might also have to use makevars. Windows is not supported. Installation of R package. MAC user might have to use curl instead of wget. Installation of C program. Run example using R. If you are in the...

4

software

http://popgen.dk/software

Analysis of Next Generation Sequencing Data. Infer the ancestry proportions from low depth NGS data. The principal is the same as other softwares such as FRAPPE and ADMIXTURE however, ngsAdmix also works when you have uncertainty in your data. This makes it ideal for medium and low depth sequencing data where many genotypes cannot be called without introducing errors or ascertainment bias. Relate. Infered IBD sharing across a chromosome for a sib pair estimated using affy 500k data. Bayesian Association ...

5

ANGSD - angsd

http://popgen.dk/angsd

ANGSD: Analysis of next generation Sequencing Data. Latest tar.gz version is (0.916/0.917 on github), see Change log. For changes, and download it here. Redirected from Main Page. This program is not for manipulating BAM/CRAM files, but solely a tool to perform various kinds of analysis. We recommend the excellent program SAMtools. For outputting and modifying bamfiles. ANGSD is also on github: https:/ github.com/ANGSD/angsd. Retrieved from " http:/ www.popgen.dk/angsd/index.php? PCA (without SNP calling).

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Saturday, January 24, 2009. CNV and HIV susceptibility. Copy number at CCL3L1 is one of the genetic predictors of HIV susceptibility in humans ( Gonzalez et al. With individuals with copy number higher than the population median being less susceptible. A new paper at PLoS Genetics. Degenhardt et al. Copy Number Variation of CCL3-like Genes Affects Rate of Progression to Simian-AIDS in Rhesus Macaques (Macaca mulatta) PLoS Genetics 2009. Posted by Graham Coop. Friday, January 23, 2009. One of the best thi...

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Home - Vienna Graduate School of Population Genetics

Zum zusätzlichen Inhalt springen. Upcoming seminars, talks and events. Frontiers of Population Genetics IV. Walter M. Fitch Award Finalist Ana Marija Jakšić. Next seminar: Gökce Aköz (GMI, AT). 17042018 - Understanding the distinct history of a single Aquilegia chromosome. Follow us on Twitter! Partner: FWF - Der Wissenschaftsfond. Partner: Vetmed Uni Vienna. Partner: Max D. Perutz Laboratories. Partner: Gregor Mendel Institute.

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PopGen.at | Populationsgenetik, Genetische Genealogie, Zentral-Europa, Alpen, Tirol, Sequenzierung, Genom, Blog

AlpGen – Alpine DNA. TiGen – Tirol Genealogie. RiGen – Ritten Genealogie. RoGen – Rottensteiner.Name. RSGen – GesamtVerwandtschaft. CRGen – GesamtVerwandtschaft. AlpGen – Alpine DNA. Dieses Projekt möchte populationsgenetische Erkenntnisse mit verschiedensten Hilfswissenschaften für den Alpenraum zusammenführen. TiGen – Tirol Genealogie. Übernimmt die Ziele und Methoden des AlpGen Projektes mit Fokus auf die Region des historischen Tirols. RoGen – Rottensteiner.Name. Ähneln zu scheint. Das Unternehme...

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Statistical genetics and population genetics at the bioinformatics center

Statistical genetics and population genetics at the bioinformatics center. Summer course in human genetics. Uncovering the Genetic History of the Present-Day Greenlandic Population. ANGSD: Analysis of Next Generation Sequencing Data. DivA: Detection of non-homologous and very divergent regions in protein sequence alignments. BMC Research Notes, in press. The genetic prehistory of the New World Arctic. A recessive mutation explains more than 10% of all cases of type 2 diabetes in Greenland. New research s...

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Universität Düsseldorf: Populationsgenetik

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POPGEN | International Database on the Legal and Socio-Ethical Aspects of Population Genetics

International Database on the Legal and Socio-Ethical. Aspects of Population Genetics. Database of Laws and Policies. Large-scale human population genetics research studies seek to explore and understand complex, common diseases by analyzing genetic variations and gene-environment interactions. In order to do so, and to facilitate this type of research, population studies that collect data and biological samples have arisen across the world. Website by Créations Touché.

popgen.net popgen.net

Population Genetics

You can find here:. Population Genomic Data Analysis Course. Selection Detection workbench for dominant markers. Population genetics simulator for Malaria and sex theory. Database and tool integration for population genetics using Python. A modeler for the coalescent.

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Migrate-n

Current Version is 3.6. Important additional information to help run recent version of migrate:. Most recent paper on migrate technology: Beerli and Palczewski 2010:. Unified Framework to Evaluate Panmixia and Migration Direction Among Multiple Sampling Locations. Genetics (2010) vol. 185 pp. 313- 326 (. Tutorial on how to compare population genetic models (. Opinion about issues with divergence and accuracy of migration rates (. Known problems with current version:. No known problem (yet).

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Populationsgenetik

Tel: 08-16 20 00 (vxl) webmaster@popgen.su.se. På uppdrag av Havs- och Vattenmyndigheten skrev forskare vid Avdelningen för populationsgenetik en rapport om genetiska effekter av storskaliga utsättningar av lax i Östersjön. Report: Compromising Baltic salmon genetic diversity. A brief summary of the report. Report from Symposium and Workshop. More information about salmon within the BaltGene research program. Monitoring gene level biodiversity - aspects and considerations in the context of conservation.