不公开的多个值，但保持跟踪的行号

我有一个包含与由分号分隔基因名称的同义词的多个值的列的数据帧的：不公开的多个值，但保持跟踪的行号

score <- c("32.01","19.5","18.0") 
symbol <- c("30 kDa adipocyte complemen related protein","AAT1","Cachectin") 
synonym <- c("30 kDa adipocyte complemen related protein; 30 kDa adipocyte complement-related protein; ACDC; ACRP30; ADIPOQ; APM-1; APM1; Adipocyte C1Q and collagen domain containing","AAT1; AAT1; ALT-1; ALT1; Alanine aminotransferase; Alanine aminotransferase 1; GPT 1; GPT1; Glutamate pyruvate transaminase; Glutamic--alanine transaminase 1; Glutamic--pyruvic transaminase 1","Cachectin; TNF alpha; TNF-a; TNFA; TNFSF-2; TNFSF2; TNFalpha; Tumor necrosis factor; Tumor necrosis factor ligand superfamily member 2; Tumor necrosis factor precursor; tumor necrosis factor alpha") 
df <- data.frame(score, symbol, synonym, stringsAsFactors=FALSE)

这是从数据输出的原始矿业。我将数据中的官方基因符号映射到Entrez ID。符号列通常不包含基因符号，因此我必须提取所有同义词（通常，列表中有官方符号）。我希望跟踪行号的目标是，一旦我将所有符号映射到Entrez ID，我就可以识别那些没有地图的行。

我目前使用strsplit和不公开解析出的同义词，但我失去跟踪哪个行的每个代名词来自：

tmp <- data.frame(unlist(strsplit(as.character(df$synonym), "; ")))

我想要的东西，看起来像这样：

originalRow <- c(1,1,1,1,1,1,1,1,2,2,2,2,2,2,2,2,2,2,2,3,3,3,3,3,3,3,3,3,3,3) 
cbind(tmp, originalRow) 

    synonym           originalRow 
1 30 kDa adipocyte complemen related protein   1 
2 30 kDa adipocyte complement-related protein   1 
3 ACDC             1 
4 ACRP30            1 
5 ADIPOQ            1 
6 APM-1            1 
7 APM1             1 
8 Adipocyte C1Q and collagen domain containing   1 
9 AAT1             2 
10 AAT1            2 
11 ALT-1            2 
12 ALT1            2 
13 Alanine aminotransferase       2 
14 Alanine aminotransferase 1       2 
15 GPT 1            2 
16 GPT1            2 
17 Glutamate pyruvate transaminase      2 
18 Glutamic--alanine transaminase 1     2 
19 Glutamic--pyruvic transaminase 1     2 
20 Cachectin           3 
21 TNF alpha           3 
22 TNF-a            3 
23 TNFA            3 
24 TNFSF-2            3 
25 TNFSF2            3 
26 TNFalpha           3 
27 Tumor necrosis factor        3 
28 Tumor necrosis factor ligand superfamily member 2 3 
29 Tumor necrosis factor precursor      3 
30 tumor necrosis factor alpha       3

任何意见将不胜感激！

来源

2017-04-05 user1357079

在这里，您可以拆分每一行，将行的值与行号合并为一个data.frame，然后将所有这些data.frames绑定在一起。你可以这样做

do.call("rbind", Map(data.frame, 
    synonym=strsplit(as.character(df$synonym), ";"), 
    origRow=seq_along(df$synonym)) 
)

来源

2017-04-05 20:09:02 MrFlick

不错。我不知道seq_along。谢谢。 – user1357079

另一种方法是将同义词存储在一个列表，然后可以迭代通过比较符号数组。在单个列表元素中工作，不需要跟踪原始行号。这也将裁剪空白进行比较。

lst <- lapply(synonym, function(x) trimws(unlist(strsplit(x, ";")))) 
lapply(lst, setdiff, symbol) # return values not in symbol array 

[[1]] 
[1] "30 kDa adipocyte complement-related protein" "ACDC"           
[3] "ACRP30"          "ADIPOQ"          
[5] "APM-1"          "APM1"           
[7] "Adipocyte C1Q and collagen domain containing" 

[[2]] 
[1] "ALT-1"       "ALT1"        "Alanine aminotransferase"   
[4] "Alanine aminotransferase 1"  "GPT 1"       "GPT1"        
[7] "Glutamate pyruvate transaminase" "Glutamic--alanine transaminase 1" "Glutamic--pyruvic transaminase 1" 

[[3]] 
[1] "TNF alpha"           "TNF-a"            
[3] "TNFA"            "TNFSF-2"           
[5] "TNFSF2"           "TNFalpha"           
[7] "Tumor necrosis factor"        "Tumor necrosis factor ligand superfamily member 2" 
[9] "Tumor necrosis factor precursor"     "tumor necrosis factor alpha"

来源

2017-04-05 20:37:07 manotheshark

不公开的多个值，但保持跟踪的行号

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