Phenoscanner github
Webphenoscanner allows users to query the PhenoScanner database of genotype-phenotype associations from inside R. Functions phenoscanner - this function allows users to query … phenoscanner allows users to query the PhenoScanner database of genotype … Write better code with AI Code review. Manage code changes Skip to content. Sign up Product GitHub is where people build software. More than 83 million people use GitHub … Releases - GitHub - phenoscanner/phenoscanner: … WebMar 15, 2024 · Lastly, we used the PhenoScanner tool to check if the SNPs used in the MR analysis were associated with other phenotypes. As a result, several instrumental variables such as rs45446698, rs112635299 and rs4453027 were associated with body mass index (BMI), which was suggested to affect the risk of breast cancer . Therefore, we further …
Phenoscanner github
Did you know?
WebJan 10, 2024 · MendelianRandomization is a package developed to carry out various Mendelian randomization analyses on summarized genetic data in R. The package uses various methods to assess whether a risk factor (also called an exposure) has a causal effect on an outcome. library (MendelianRandomization) The Input WebApr 11, 2024 · 2024年以来浙中医大学郑老师开设了一系列医学科研统计课程，零基础入门医学统计包括R语言、meta分析、临床预测模型、真实世界临床研究、问卷与量表分析、医学统计与SPSS、临床试验数据分析、重复测量资料分析、结构方程模型、孟德尔随机化等10门课，如果您有需求，不妨点击下方跳转查看 ...
WebJan 10, 2024 · The PhenoScanner bioinformatic tool ( http://phenoscanner.medschl.cam.ac.uk/) is a curated database of publicly available results from large-scale genetic association studies. Queries can be made for individual genetic variants (SNPs and small indels), or for multiple variants in a single batch query. Webphenoscanner -cAll -lNo -p0.00001 -i97.snps -o97 For the GIANT+UKB data above, the setup is awk'NR>1'BMI.dat \cut-f3>BMI.rsid phenoscanner -cAll -lNo -p0.00001 -iBMI.rsid -oBMI in both cases, results could be expanded by allowing for LD. Pathway analysis gunzip-cMeta-analysis_Locke_et_al+UKBiobank_2024.txt.gz awk' { FS=OFS="\t"
Weband we have these output available from the current directory: CLEANED.studyX_file1.txt CLEANED.studyX_file1.txt.10rows CLEANED.studyX_file2.txt CLEANED.studyX_file2.txt.10rows example_qc.rep. One can carry on with downloading reference data from the website above as well. Built with GitHub Pages using a theme … WebJan 10, 2024 · The phenoscanner function queries the PhenoScanner database of genotype-phenotype associations from inside R. Usage phenoscanner ( snpquery = NULL, genequery = NULL, regionquery = NULL, catalogue = "GWAS", pvalue = 1e-05, proxies = "None", r2 = 0.8, build = 37 ) Arguments Value
WebThe phenoscanner function queries the PhenoScanner database of genotype-phenotype associations from inside R. RDocumentation. Search all packages and functions. MendelianRandomization (version 0.7.0) Description Usage Value. Arguments. Author. Examples Run this code ...
WebGitHub phenoscanner/phenoscanner R/phenoscanner.R R/phenoscanner.R In phenoscanner/phenoscanner: R package to query PhenoScanner from R Defines functions phenoscanner Documented in phenoscanner could be of useWebAssumption 2 is tested by using PhenoScanner. Assumption 3 is tested by genetic instrumental variables p > 5 × 10 −8. Data source. The exposure data of COVID-19 phenotypic statistics in this study were sourced from the latest GWAS meta-analyses by the COVID-19 Host Genetics Initiative ... breeds of pit bulls with picturesWebDue to the second assumption of the MR approach, we also searched for potential pleiotropy in the PhenoScanner v2 database (p = 1 × 10–5). 2 The SNPs would be specifically removed for the analysis in Figure 1A if related to hypertension, diabetes, smoking, obesity, depression, cholesterol, and hard of hearing on AD , head trauma, intake of ... breeds of pitbull terriersWebOct 15, 2016 · PhenoScanner is a curated database of publicly available results from large-scale genetic association studies. This tool aims to facilitate 'phenome scans', the cross-referencing of genetic variants with many phenotypes, to help aid understanding of disease pathways and biology. breeds of platypusWebPhenoScanner is a curated database holding publicly available results from large-scale genetic association studies. The motivation for creating this tool is to facilitate “phenome scans”, the cross-referencing of genetic variants with a broad range of phenotypes, to help aid the understanding of disease pathways and biology. The catalogue currently contains … breeds of pitbullsWebGitHub phenoscanner/phenoscanner R/phenoscanner.R R/phenoscanner.R In phenoscanner/phenoscanner: R package to query PhenoScanner from R Defines … breeds of poodlesWebThe phenoscanner function queries the PhenoScanner database of genotype-phenotype associations from inside R. Usage phenoscanner ( snpquery = NULL, genequery = NULL, regionquery = NULL, catalogue = "GWAS", pvalue = 1e-05, proxies = "None", r2 = 0.8, build = 37 ) Arguments Value breeds of pit bulls