R help - Mar 2022 - conditional filling of data.frame - improve code

Use merge.

expts <- read.csv( text "expt,sample
ex1,sample1-1
ex1,sample1-2
ex2,sample2-1
ex2,sample2-2
ex2,sample2-3
", header=TRUE, as.is=TRUE )

mydata <- data.frame(sample = c("sample2-2", "sample2-3",
"sample1-1", "sample1-1", "sample1-1",
"sample2-1"))

merge( mydata, expts, by="sample", all.x=TRUE )


On March 10, 2022 7:50:23 AM PST, Ivan Calandra <ivan.calandra at rgzm.de>
wrote:
>Dear useRs,
>
>I would like to improve my ugly (though working) code, but I think I 
>need a completely different approach and I just can't think out of my
box!
>
>I have some external information about which sample(s) belong to which 
>experiment. I need to get that manually into R (either typing directly 
>in a script or read a CSV file, but that makes no difference):
>exp <- list(ex1 = c("sample1-1", "sample1-2"), ex2 =
c("sample2-1",
>"sample2-2" , "sample2-3"))
>
>Then I have my data, only with the sample IDs:
>mydata <- data.frame(sample = c("sample2-2",
"sample2-3", "sample1-1",
>"sample1-1", "sample1-1", "sample2-1"))
>
>Now I want to add a column to mydata with the experiment ID. The best I 
>could find is that:
>for (i in names(exp)) mydata[mydata[["sample"]] %in% exp[[i]], 
>"experiment"] <- i
>
>In this example, the experiment ID could be extracted from the sample 
>IDs, but this is not the case with my real data so it really is a matter 
>of matching. Of course I also have other columns with my real data.
>
>I'm pretty sure the last line (with the loop) can be improved in terms 
>of readability (speed is not an issue here). I have close to no 
>constraints on 'exp' (here I chose a list, but anything could do),
the
>only thing that cannot change is the format of 'mydata'.
>
>Thank you in advance!
>Ivan
>
-- 
Sent from my phone. Please excuse my brevity.

You could try some of the "join" commands from dplyr.
https://dplyr.tidyverse.org/reference/mutate-joins.html
https://statisticsglobe.com/r-dplyr-join-inner-left-right-full-semi-anti


Regards,
Tim
-----Original Message-----
From: R-help <r-help-bounces at r-project.org> On Behalf Of Jeff Newmiller
Sent: Thursday, March 10, 2022 11:25 AM
To: r-help at r-project.org; Ivan Calandra <ivan.calandra at rgzm.de>;
R-help <r-help at r-project.org>
Subject: Re: [R] conditional filling of data.frame - improve code

[External Email]

Use merge.

expts <- read.csv( text "expt,sample
ex1,sample1-1
ex1,sample1-2
ex2,sample2-1
ex2,sample2-2
ex2,sample2-3
", header=TRUE, as.is=TRUE )

mydata <- data.frame(sample = c("sample2-2", "sample2-3",
"sample1-1", "sample1-1", "sample1-1",
"sample2-1"))

merge( mydata, expts, by="sample", all.x=TRUE )


On March 10, 2022 7:50:23 AM PST, Ivan Calandra <ivan.calandra at rgzm.de>
wrote:
>Dear useRs,
>
>I would like to improve my ugly (though working) code, but I think I 
>need a completely different approach and I just can't think out of my
box!
>
>I have some external information about which sample(s) belong to which 
>experiment. I need to get that manually into R (either typing directly 
>in a script or read a CSV file, but that makes no difference):
>exp <- list(ex1 = c("sample1-1", "sample1-2"), ex2 =
c("sample2-1",
>"sample2-2" , "sample2-3"))
>
>Then I have my data, only with the sample IDs:
>mydata <- data.frame(sample = c("sample2-2",
"sample2-3", "sample1-1",
>"sample1-1", "sample1-1", "sample2-1"))
>
>Now I want to add a column to mydata with the experiment ID. The best I 
>could find is that:
>for (i in names(exp)) mydata[mydata[["sample"]] %in% exp[[i]], 
>"experiment"] <- i
>
>In this example, the experiment ID could be extracted from the sample 
>IDs, but this is not the case with my real data so it really is a 
>matter of matching. Of course I also have other columns with my real data.
>
>I'm pretty sure the last line (with the loop) can be improved in terms 
>of readability (speed is not an issue here). I have close to no 
>constraints on 'exp' (here I chose a list, but anything could do),
the
>only thing that cannot change is the format of 'mydata'.
>
>Thank you in advance!
>Ivan
>
--
Sent from my phone. Please excuse my brevity.

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