富集分析是一种大家常用分析方法;msigdb数据库中有定义好的基因集,但其中绝大多数数据都是人类的;老鼠和其它物种的基因集有的,但是比较少,无法满足大众的需求。msigdbr 是一个工具包,就可以很好地帮大家解决这个问题。#1. 安装:install.packages("msigdbr") ...
ThemsigdbrR package provides Molecular Signatures Database (MSigDB) gene sets typically used with the Gene Set Enrichment Analysis (GSEA) software: in an R-friendly tidy/long format with one gene per row for multiple frequently studied model organisms, such as mouse, rat, pig, zebrafish, fly,...
R包msig的中文名称：Molecular Signatures Database（MSigDB）R Package‘msig’October13,2022 Title An R Package for Exploring Molecular Signatures Database Version1.0 Description The Molecular Signatures Database('MSigDB')is one of the most widely used and comprehensive databases of gene sets for ...
代码语言:javascript 复制 CGPCP:BIOCARTACP:KEGGCP:REACTOMECP:WIKIPATHWAYS 查看,对凋亡通路感兴趣的话,control+F网页搜索 代码语言:javascript 复制 #getall human gene setsmsigdbr(species="Homo sapiens")#getmouseC2(curated)CGP(chemical and genetic perturbations)gene setsmsigdbr(species="Mus musculus",cate...
The msigdbr R package provides Molecular Signatures Database (MSigDB) gene sets typically used with the Gene Set Enrichment Analysis (GSEA) software:in an R-friendly tidy/long format with one gene per row for multiple frequently studied model organisms, such as mouse, rat, pig, zebrafish, fly...
The msigdbr R package provides Molecular Signatures Database (MSigDB) gene sets typically used with the Gene Set Enrichment Analysis (GSEA) software: in an R-friendly "tidy" format with one gene pair per row for multiple frequently studied model organisms, such as mouse, rat, pig, zebrafish,...
备注:本内容仅供学习交流,禁止用于商业用途,如有侵权请联系删除! 参考链接: msig:An R Package for Exploring Molecular Signatures Database msigdbr: MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format
不使用msigdbr包,biomaRt 可以进行物种间同源基因转换;但是会面对一对多的情况。 Ge Lab Gene Set Files 也提供多个物种的GMT文件供下载; WEHI也提供人类和鼠类的MSigDB 基因集,但是数据只是 Entrez ID以及每个基因集是单独的文件。 MSigDF 是基于WEHI 数据的。 原文: Introduction to the msigdbr package最后...