py-merp.github.io

Welcome to py-merp’s documentation! — MeRP 0.0.1 documentation

MeRP 0.0.1 documentation. Welcome to py-merp’s documentation! 11 What is Mendelian Randomization? 17 General information and Contact Info. 2 Tutorial (Basic Usage). 21 Pulling Genetic Instruments from GWAS Catalog Data. 22 Selecting/Updating IVs for Traits of Interest. 23 Filter Trait IVFs for Confounding and LD. 24 Calculate Trait-Disease Casual Effect Estimate. 25 Optional: Export to gtx R Package for Additional Analysis. 31 Obtaining Genetic Instruments from Public Data. 33 MR Score Calculation.

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Welcome to py-merp’s documentation! — MeRP 0.0.1 documentation | py-merp.github.io Reviews

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MeRP 0.0.1 documentation. Welcome to py-merp’s documentation! 11 What is Mendelian Randomization? 17 General information and Contact Info. 2 Tutorial (Basic Usage). 21 Pulling Genetic Instruments from GWAS Catalog Data. 22 Selecting/Updating IVs for Traits of Interest. 23 Filter Trait IVFs for Confounding and LD. 24 Calculate Trait-Disease Casual Effect Estimate. 25 Optional: Export to gtx R Package for Additional Analysis. 31 Obtaining Genetic Instruments from Public Data. 33 MR Score Calculation.

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Welcome to py-merp’s documentation! — MeRP 0.0.1 documentation | py-merp.github.io Reviews

https://py-merp.github.io

MeRP 0.0.1 documentation. Welcome to py-merp’s documentation! 11 What is Mendelian Randomization? 17 General information and Contact Info. 2 Tutorial (Basic Usage). 21 Pulling Genetic Instruments from GWAS Catalog Data. 22 Selecting/Updating IVs for Traits of Interest. 23 Filter Trait IVFs for Confounding and LD. 24 Calculate Trait-Disease Casual Effect Estimate. 25 Optional: Export to gtx R Package for Additional Analysis. 31 Obtaining Genetic Instruments from Public Data. 33 MR Score Calculation.

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3. Detailed Workflow — MeRP 0.0.1 documentation

http://py-merp.github.io/workflow.html

MeRP 0.0.1 documentation. 31 Obtaining Genetic Instruments from Public Data. Polarize’ the effect sizes given according to the unit syntax provided. 32 Linkage Disequilibrium (LD) and Confounding Association Filtering. For the IVF to satisfy conditions of MR analysis, MeRP provides filtering steps for LD and confounding trait associations. 321 Development of Metabolic P-val file. NA”). Final, filtered instrumental variable files (IVF) will contain the number of `. 322 Obtaining LD-query information.

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2. Tutorial (Basic Usage) — MeRP 0.0.1 documentation

http://py-merp.github.io/usage.html

MeRP 0.0.1 documentation. 2 Tutorial (Basic Usage). The MeRP pipeline works in the python console. First, from the command line, install the package. Then enter your python console. To import and initialize MeRP after entering the Python console, run the commands:. In this tutorial we will address the following question:. Does LDL cholestrol levels have a causal effect on the risk of Coronary Heart Disease? 21 Pulling Genetic Instruments from GWAS Catalog Data. Keyword = “”. Run update function with trai...

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1. Introduction — MeRP 0.0.1 documentation

http://py-merp.github.io/intro.html

MeRP 0.0.1 documentation. MeRP is a free, open-source tool designed to streamline and automate large-scale Mendelian Randomization analysis. 11 What is Mendelian Randomization? There are three components of the MeRP pipeline. Pulling Genetic Instruments from Public Data. Pulls down and cleans most recent NHGRI Catalog of GWAS studies. Creates valid instrumental variable trait files (IVs) from catalog. Filtering to satisfy MR conditions. Eliminates Linkage Disequilibrium (LD) within IV file.

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Index — MeRP 0.0.1 documentation

http://py-merp.github.io/genindex.html

MeRP 0.0.1 documentation. Enter search terms or a module, class or function name. MeRP 0.0.1 documentation.

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coruscant.itmat.upenn.edu

Benjamin F. Voight, PhD &#8226 Software

http://coruscant.itmat.upenn.edu/software.html

Benjamin F. Voight, PhD &#8226 Software. Assistant Professor of Pharmacology and Genetics. University of Pennsylvania &#8226 Perelman School of Medicine. 3400 Civic Center Boulevard &#8226 10-126 Smilow Center for Translational Research &#8226 Philadelphia, PA 19104. This program is designed to calculate the integrated Hapotype Score (iHS), described in Voight and Kudaravelli et al. (PLoS Biology, 2006). This tool modifies slightly upon that program found elsewhere. Tools for Mendelian Randomization.

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Welcome to py-merp’s documentation! — MeRP 0.0.1 documentation

MeRP 0.0.1 documentation. Welcome to py-merp’s documentation! 11 What is Mendelian Randomization? 17 General information and Contact Info. 2 Tutorial (Basic Usage). 21 Pulling Genetic Instruments from GWAS Catalog Data. 22 Selecting/Updating IVs for Traits of Interest. 23 Filter Trait IVFs for Confounding and LD. 24 Calculate Trait-Disease Casual Effect Estimate. 25 Optional: Export to gtx R Package for Additional Analysis. 31 Obtaining Genetic Instruments from Public Data. 33 MR Score Calculation.

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