apply() func. not functioning on my dataset

Akash01 · June 1, 2023, 11:43am

here is a small part of dataset:

Time	Andaman and Nicobar Islands	Arunachal Pradesh
1951	3275.1	3354.2
1952	3079.9	2396.1
1953	2721.9
1954	3449
1955	3349.6	5063.5
1956	3080	4195.5
1957	2507.2	3709.4

when i type: apply(file, 1, mean), it gives NA for every row along with the following warnings:
1: In mean.default(newX[, i], ...) :
argument is not numeric or logical: returning NA

Please help!

nirgrahamuk · June 1, 2023, 12:32pm

Hi!

To help us help you, could you please prepare a reproducible example (reprex) illustrating your issue? Please have a look at this guide, to see how to create one:

FAQ: How to do a minimal reproducible example ( reprex ) for beginners Guides & FAQs

A minimal reproducible example consists of the following items: A minimal dataset, necessary to reproduce the issue The minimal runnable code necessary to reproduce the issue, which can be run on the given dataset, and including the necessary information on the used packages. Let's quickly go over each one of these with examples: Minimal Dataset (Sample Data) You need to provide a data frame that is small enough to be (reasonably) pasted on a post, but big enough to reproduce your issue. Let's say, as an example, that you are working with the iris data frame head(iris) #> Sepal.Length Sepal.Width Petal.Length Petal.Width Species #> 1 5.1 3.5 1.4 0.…

Comede_way · June 1, 2023, 3:46pm

@Akash01 Well, d1 is name of dataset. d1[,-1] means that doesn't contain first column if
you don't need to contain the first column. Maybe you need the mean value of every year?

apply(d1[,-1],1,function(x) mean(x, na.rm = TRUE))

^{Created on 2023-06-01 with reprex v2.0.2}

Akash01 · June 1, 2023, 4:57pm

file2<-tibble::tribble(
         ~Time, ~Andaman.and.Nicobar.Islands, ~Arunachal.Pradesh, ~Assam.and.Meghalaya,
         1951L,                       3275.1,             3354.2,               2613.8,
         1952L,                       3079.9,             2396.1,               2851.3,
         1953L,                       2721.9,                 NA,               2559.9,
         1954L,                         3449,                 NA,               2859.1,
         1955L,                       3349.6,             5063.5,               2761.2,
         1956L,                         3080,             4195.5,               2802.9
         )

# intention to calculate mean for each year 
f.mean<-apply(file2[,-1], 1,function(x) mean(x, na.rm = TRUE))
f.mean
#> [1] 3081.033 2775.767 2640.900 3154.050 3724.767 3359.467

Created on 2023-06-01 with reprex v2.0.2

Output
[1] NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
[20] NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
[39] NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
[58] NA NA NA NA NA NA NA NA NA NA NA NA NA
Warning: In mean.default(x, na.rm = TRUE) :
argument is not numeric or logical: returning NA

Akash01 · June 1, 2023, 5:02pm

file2<-tibble::tribble(
         ~Time, ~Andaman.and.Nicobar.Islands, ~Arunachal.Pradesh, ~Assam.and.Meghalaya,
         1951,                       3275.1,             3354.2,               2613.8,
         1952,                       3079.9,             2396.1,               2851.3,
         1953,                       2721.9,                 NA,               2559.9,
         1954,                         3449,                 NA,               2859.1,
         1955,                       3349.6,             5063.5,               2761.2,
         1956,                         3080,             4195.5,               2802.9
         )

# intention to calculate mean for each year 
f.mean<-apply(file2, 1, mean)

Created on 2023-06-01 with reprex v2.0.2
It is showing the following output:

f.mean
[1] NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
[20] NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
[39] NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA
[58] NA NA NA NA NA NA NA NA NA NA NA NA NA

Along with this warning:
In mean.default(x, na.rm = TRUE) :
argument is not numeric or logical: returning NA

FJCC · June 1, 2023, 5:46pm

With the data provided, you should get six values, not 70. Here is what I get with and without using na.rm = TRUE.

file2<-tibble::tribble(
  ~Time, ~Andaman.and.Nicobar.Islands, ~Arunachal.Pradesh, ~Assam.and.Meghalaya,
  1951,                       3275.1,             3354.2,               2613.8,
  1952,                       3079.9,             2396.1,               2851.3,
  1953,                       2721.9,                 NA,               2559.9,
  1954,                         3449,                 NA,               2859.1,
  1955,                       3349.6,             5063.5,               2761.2,
  1956,                         3080,             4195.5,               2802.9
)

# intention to calculate mean for each year 
f.mean <- apply(file2, 1, mean)
f.mean
#> [1] 2798.525 2569.825       NA       NA 3282.325 3008.600

f.mean2 <- apply(file2, 1, function(x) mean(x,na.rm = TRUE))
f.mean2
#> [1] 2798.525 2569.825 2411.600 2754.033 3282.325 3008.600

^{Created on 2023-06-01 with reprex v2.0.2}
Notice that I did not exclude the Time column, though doing that should not change the basic solution.

Comede_way · June 2, 2023, 1:47am

Hi, I run the code like this, it works ok on my computer. And maybe you don't need to contain the variable"time"(the first column) to get the mean value. Based on your code, maybe you have other columns that data type is not numeric like the time column. And would you want to calculate the mean value by row or by column?
Looking forward to your reply, thank you.

file2<-tibble::tribble(
  ~Time, ~Andaman.and.Nicobar.Islands, ~Arunachal.Pradesh, ~Assam.and.Meghalaya,
  1951L,                       3275.1,             3354.2,               2613.8,
  1952L,                       3079.9,             2396.1,               2851.3,
  1953L,                       2721.9,                 NA,               2559.9,
  1954L,                         3449,                 NA,               2859.1,
  1955L,                       3349.6,             5063.5,               2761.2,
  1956L,                         3080,             4195.5,               2802.9
)
f.mean<-apply(file2[,-1], 1,function(x) mean(x, na.rm = TRUE))
f.mean
#> [1] 3081.033 2775.767 2640.900 3154.050 3724.767 3359.467

^{Created on 2023-06-02 with reprex v2.0.2}

And you could use file2$mean<-apply(file2[,-1], 1,function(x) mean(x, na.rm = TRUE)) to calcluate and add the mean value to the data, if you need to calculate the mean value by row.

file2<-tibble::tribble(
  ~Time, ~Andaman.and.Nicobar.Islands, ~Arunachal.Pradesh, ~Assam.and.Meghalaya,
  1951L,                       3275.1,             3354.2,               2613.8,
  1952L,                       3079.9,             2396.1,               2851.3,
  1953L,                       2721.9,                 NA,               2559.9,
  1954L,                         3449,                 NA,               2859.1,
  1955L,                       3349.6,             5063.5,               2761.2,
  1956L,                         3080,             4195.5,               2802.9
)
file2$mean<-apply(file2[,-1], 1,function(x) mean(x, na.rm = TRUE))

^{Created on 2023-06-02 with reprex v2.0.2}

Akash01 · June 2, 2023, 7:56am

Thank you for your support @Comede_way @FJCC , I am good to go.

system · June 23, 2023, 7:56am

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