ggcorr: correlation matrixes with ggplot2 (briatte.github.io)<\/a><\/p>\n![](\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-28677-2.png?resize=640%2C173\")
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\u4e0b\u8f7d\u5b89\u88c5<\/p>\n
\u9996\u5148\u4e0b\u8f7dggcor\u5305\u5230\u672c\u5730\uff0c<\/p>\n
\u672c\u6587\u76f8\u5173\u4ee3\u7801\u53ca\u6570\u636e\u90fd\u5df2\u4f20\u5230\u767e\u5ea6\u4e91\u7f51\u76d8\uff1a<\/p>\n
\u94fe\u63a5\uff1ahttps:\/\/pan.baidu.com\/s\/1K9XGIaIiRfTdj2dJgLaMyw?pwd=ea0l<\/p>\n
\u63d0\u53d6\u7801\uff1aea0l<\/p>\n
###\u89e3\u538bggcor_master.zip\uff0c\u5207\u6362\u5230\u6587\u4ef6\u5939\u76ee\u5f55\uff0c\u5b89\u88c5<\/p>\n
devtools::install_local(“ggcor_master”, force = TRUE)<\/p>\n
![](\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-28677-3.png?resize=640%2C373\")
<\/p>\n
\u4e0b\u9762\u662fggcor\u5b89\u88c5\u7684\u5177\u4f53\u5b9e\u5217\u53ca\u4ee3\u7801\uff1a<\/p>\n
#\u4f7f\u7528ggcor\u7ed8\u5236\u56fe\u5f62<\/p>\n
library(vegan)#\u52a0\u8f7dvegan\u5305<\/p>\n
library(ggcor)<\/p>\n
library(ggplot2)<\/p>\n
data(“varechem”)#\u52a0\u8f7dvegan\u5185\u7f6e\u6570\u636e-\u7406\u5316\u6570\u636e<\/p>\n
data(“varespec”)#\u52a0\u8f7dvegan\u5185\u7f6e\u6570\u636e-\u7269\u79cd\u6570\u636e<\/p>\n
#\u6570\u636e\u51c6\u5907<\/p>\n
head(varechem)###\u67e5\u770b\u6570\u636e<\/p>\n
head(varespec)<\/p>\n
write.csv(varechem,file=”varechem.csv”) ##\u4fdd\u5b58\u6570\u636e<\/p>\n
write.csv(varespec,file=”varespec.csv”)<\/p>\n
mantel <- mantel_test(varespec, varechem,<\/p>\n
spec.select = list(Spec01 = 1:7,#\u4f9d\u6b21\u5b9a\u4e49\u56db\u79cd\u7269\u79cd\u4f5c\u4e3aMantel\u7684\u5206\u6790\u5bf9\u8c61<\/p>\n
Spec02 = 8:18,<\/p>\n
Spec03 = 19:37,<\/p>\n
Spec04 = 38:44)) %>%<\/p>\n
mutate(rd = cut(r, breaks = c(-Inf, 0.2, 0.4, Inf),<\/p>\n
labels = c(“< 0.2”, “0.2 – 0.4”, “>= 0.4”)),#\u5b9a\u4e49Mantel\u7684R\u503c\u8303\u56f4\u6807\u7b7e\uff0c\u4fbf\u4e8e\u51fa\u56fe<\/p>\n
pd = cut(p.value, breaks = c(-Inf, 0.01, 0.05, Inf),<\/p>\n
labels = c(“< 0.01”, “0.01 – 0.05”, “>= 0.05”)))#\u5b9a\u4e49Mantel\u68c0\u9a8c\u7684p\u503c\u8303\u56f4\u6807\u7b7e\uff0c\u4fbf\u4e8e\u51fa\u56fe<\/p>\n
pdf(“corrplot.pdf”,10,10)<\/p>\n
quickcor(varechem, type = “upper”) +#\u7ed8\u5236\u7406\u5316\u6570\u636e\u70ed\u56fe<\/p>\n
geom_square() +#\u5b9a\u4e49\u6210\u65b9\u5757\u72b6<\/p>\n
anno_link(aes(colour = pd, size = rd), data = mantel) +#\u5b9a\u4e49\u8fde\u7ebf<\/p>\n
scale_size_manual(values = c(0.5, 1, 2))+<\/p>\n
guides(size = guide_legend(title = “Mantel’s r”,#\u5b9a\u4e49\u56fe\u4f8b<\/p>\n
order = 2),<\/p>\n
colour = guide_legend(title = “Mantel’s p”,<\/p>\n
order = 3),<\/p>\n
fill = guide_colorbar(title = “Pearson’s r”, order = 4))<\/p>\n
dev.off()<\/p>\n
![](\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-28677-4.png?resize=623%2C629\")
<\/p>\n
\u7ed3\u679c\u56fe\u7247\uff1a<\/p>\n
![](\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-28677-5.png?resize=640%2C424\")
<\/p>\n
\u200b\u6b22\u8fce\u5173\u6ce8”\u751f\u4fe1\u679c\u201d\u3001\u201c\u4e91\u751f\u4fe1\u5b66\u751f\u7269\u4fe1\u606f\u5b66\u201d\u3001\u201c\u5c14\u4e91\u95f4meta\u5206\u6790\u201d\u516c\u4f17\u53f7\uff0c\u4ee5\u53ca\u77e5\u4e4e\u3001BiliBili\u7b49\u4e3b\u8981\u53d1\u8868\u6216\u6536\u5f55\u751f\u7269\u4fe1\u606f\u5b66\u7684\u6559\u7a0b\uff0c\u4ee5\u53ca\u57fa\u4e8eR\u7684\u5206\u6790\u548c\u53ef\u89c6\u5316\u7b49\u5185\u5bb9\uff0c\u4e00\u8d77\u89c1\u8bc1\u5c0f\u767d\u548c\u5927\u4f6c\u7684\u6210\u957f\u3002<\/p>\n
![](\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-28677-6.png?resize=323%2C344\")
<\/p>\n","protected":false},"excerpt":{"rendered":"
ggcor\u5305\u662f\u5f88\u96be\u5b89\u88c5\u7684\uff0c\u76f4\u63a5\u4f7f\u7528install.package()\u548c\u4f7f\u7528Bioc\u662f\u65e0\u6cd5\u5b89\u88c5\u7684\uff0c\u5728R\u7684\u955c\u50cf\u4e2d\u4e5f […]<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":""},"categories":[1],"tags":[],"jetpack_featured_media_url":"","_links":{"self":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/28677"}],"collection":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=28677"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/28677\/revisions"}],"predecessor-version":[{"id":28684,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/28677\/revisions\/28684"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=28677"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=28677"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=28677"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}
![](\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-28677-1.png?resize=373%2C392\")
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