When running this code:
predict(rfm, x[split.idx[[i]], sig_otu], type="prob")
I get this error message:
Error in x[, vname, drop = FALSE] : subscript out of bounds
Does this error message arise from incorrect bracketing? I've tried re-arranging brackets, adding parentheses, etc. However, I will still get this error message.
split.idx is a list of 8 str(split.idx)
List of 8
$ 1: Named int [1:10] 2 3 13 17 34 40 72 70 30 27
..- attr(*, "names")= chr [1:10] "01" "09" "017" "025" ...
$ 2: Named int [1:10] 21 32 67 52 12 55 36 37 24 31
..- attr(*, "names")= chr [1:10] "02" "010" "018" "026" ...
$ 3: Named int [1:10] 49 58 64 8 54 62 1 41 39 35
..- attr(*, "names")= chr [1:10] "03" "011" "019" "027" ...
$ 4: Named int [1:10] 46 59 20 43 47 4 57 76 33 29
..- attr(*, "names")= chr [1:10] "04" "012" "020" "028" ...
$ 5: Named int [1:10] 42 45 69 71 44 38 7 10 9 78
..- attr(*, "names")= chr [1:10] "05" "013" "021" "029" ...
$ 6: Named int [1:10] 15 5 73 61 63 25 28 48 53 14
..- attr(*, "names")= chr [1:10] "06" "014" "022" "030" ...
$ 7: Named int [1:10] 68 6 23 11 65 16 66 26 22 56
..- attr(*, "names")= chr [1:10] "07" "015" "023" "031" ...
$ 8: Named int [1:9] 51 60 74 75 50 19 77 18 79
..- attr(*, "names")= chr [1:9] "08" "016" "024" "032" ...
This is the type of variable sig_otu is:
str(sig_otu)
Named int [1:56] 12 26 44 50 79 131 144 178 240 253 ...
- attr(*, "names")= chr [1:56] "" "" "" "" ...
This is the value assigned to rfm:
rfm <- randomForest(x[-split.idx[[i]]], sig_otu], y[-split.idx[[i]]])
X is a large matrix with dim [1] 79, 1924.
Y is discrete factor with length 79 and 2 levels.
I hope that my question is clear enough to answer.
i
refers to this line that I ran earlier in the code: for(i in 1:k)
and I set k=8.
> dim(x)[2] [1] 1924
> max(sig_otu) [1] 1921
Somthing that worked for me was:
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