与另一个数据帧中定义的成对和成对的配对t检验 [英] paired t-test with pairs and groups defined in another dataframe
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问题描述
我有一个看起来像这样的数据框
I have a dataframe which looks like this
> head(data)
LH3003 LH3004 LH3005 LH3006 LH3007 LH3008 LH3009 LH3010 LH3011
cg18478105 0.02329879 0.08103364 0.01611778 0.01691191 0.01886975 0.01885553 0.01647439 0.02120779 0.01168622
cg14361672 0.09479536 0.07821380 0.02522833 0.06467310 0.05387729 0.05866673 0.08121820 0.10920162 0.04413263
cg01763666 0.03625680 0.04633759 0.04401555 0.08371531 0.09866403 0.17611284 0.07306743 0.12422579 0.11125146
cg02115394 0.10014794 0.09274320 0.08743445 0.08906313 0.09934032 0.18164115 0.06526380 0.08158144 0.08862067
cg13417420 0.01811630 0.02221060 0.01314041 0.01964530 0.02367295 0.01209913 0.01612864 0.01306061 0.04421938
cg26724186 0.32776266 0.31386294 0.24167480 0.29036142 0.24751268 0.26894756 0.20927278 0.28070790 0.33188921
LH3012 LH3013 LH3014
cg18478105 0.02466508 0.01909706 0.02054417
cg14361672 0.09172160 0.06170230 0.07752691
cg01763666 0.04328518 0.13693868 0.04288165
cg02115394 0.08682942 0.08601880 0.12413149
cg13417420 0.01980470 0.02241745 0.02038114
cg26724186 0.30832389 0.27644816 0.37630038
几乎有850000行, 另一个数据框包含样本名称后面的信息:
with almost 850000 rows, and a different dataframe which contains the information behind the sample names:
> variables
Sample_ID Name Group01
3 LH3003 pair1 0
4 LH3004 pair1 1
5 LH3005 pair2 0
6 LH3006 pair2 1
7 LH3007 pair3 0
8 LH3008 pair3 1
9 LH3009 pair4 0
10 LH3010 pair4 1
11 LH3011 pair5 0
12 LH3012 pair5 1
13 LH3013 pair6 0
14 LH3014 pair6 1
是否可以通过基于另一个数据帧定义样本对和组注释来进行配对t检验?
Is it possible to do a paired t-test by defining the pairs and the group annotation of the samples based on another dataframe?
谢谢您的帮助!
推荐答案
这是@Imo的一个变体:
Here's a variation on @Imo's:
lapply(unique(df2$Name), function(x){
samples <- df2[df2$Name==x,1]
t.test(df1[,samples[1]], df1[,samples[2]], paired=T)
})
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