[R] initiate elements in a dataframe with lists

[Bogdan Tanasa]

Dear Thierry and Juan, thank you for your help. Thank you very much.

Now, if I would like to add an element to the empty list, how shall I do :
for example, shall i = 2, and j = 1, in a bit of more complex R code :

x <- data.frame(TYPE=c("DEL", "DEL", "DUP", "TRA", "INV", "TRA"),
CHRA=c("chr1", "chr1", "chr1", "chr1", "chr2", "chr2"),
POSA=c(10, 15, 120, 340, 100, 220),
CHRB=c("chr1", "chr1", "chr1", "chr2", "chr2", "chr1"),
POSB=c(30, 100, 300, 20, 200, 320))

x$labA <- paste(x$CHRA, x$POSA, sep="_")
x$labB <- paste(x$CHRB, x$POSB, sep="_")

x$POSA_left <- x$POSA - 10
x$POSA_right <- x$POSA + 10

x$POSB_left <- x$POSB - 10
x$POSB_right <- x$POSB + 10

x$intersectA <- rep(list(list()), nrow(x))
x$intersectB <- rep(list(list()), nrow(x))

And we know that for i = 2, and j = 1, the condition is TRUE :

i <- 2
j <- 1

if ( (x$CHRA[i] == x$CHRA[j] ) &&
     (x$POSA[i] > x$POSA_left[j] ) &&
     (x$POSA[i] < x$POSA_right[j] ) )
{
   x$intersectA[i] <- c(x$intersectA[i], x$labA[j])
}

the R code does not work. Thank you for your kind help !


>
> On Wed, Jul 25, 2018 at 12:26 AM, Thierry Onkelinx <
> thierry.onkelinx using inbo.be> wrote:
>
>> Dear Bogdan,
>>
>> You are looking for x$intersectA <- vector("list", nrow(x))
>>
>> Best regards,
>>
>>
>> ir. Thierry Onkelinx
>> Statisticus / Statistician
>>
>> Vlaamse Overheid / Government of Flanders
>> INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE
>> AND FOREST
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>>
>> 2018-07-25 8:55 GMT+02:00 Bogdan Tanasa <tanasa using gmail.com>:
>>
>>> Dear all,
>>>
>>> assuming that I do have a dataframe like :
>>>
>>> x <- data.frame(TYPE=c("DEL", "DEL", "DUP", "TRA", "INV", "TRA"),
>>> CHRA=c("chr1", "chr1", "chr1", "chr1", "chr2", "chr2"),
>>> POSA=c(10, 15, 120, 340, 100, 220),
>>> CHRB=c("chr1", "chr1", "chr1", "chr2", "chr2", "chr1"),
>>> POSB=c(30, 100, 300, 20, 200, 320)) ,
>>>
>>> how could I initiate another 2 columns in x, where each element in these
>>> 2
>>> columns is going to be a list (the list could be updated later). Thank
>>> you !
>>>
>>> Shall I do,
>>>
>>> for (i in 1:dim(x)[1]) { x$intersectA[i] <- list()}
>>>
>>> for (i in 1:dim(x)[1]) { x$intersectB[i] <- list()}
>>>
>>> nothing is happening. Thank you very much !
>>>
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>>>
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>>
>>
>

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