Hi

Although you did not present your data in suitable format I do not see any 
problem.

See in line

> -----Original Message-----
> From: R-help [mailto:r-help-boun...@r-project.org] On Behalf Of Stefano
> Sofia
> Sent: Wednesday, September 7, 2016 1:09 PM
> To: r-help@r-project.org
> Subject: [R] how to manage missing values correctly when importing a data
> frame
>
> Dear R users,
> I have a data frame with 22 columns, called Storia_RM_RT. Here the first 4
> rows:
>
> Station_RM Sensor_RM Place_RM Y_init_RM M_init_RM D_init_RM
> Long_cent_RM Lat_cent_RM Height_RM Continues Station_RT Sensor_RT
> Place_RT Name1_RT Name2_RT Long_cent_RT Lat_cent_RT Height_RT
> Actual_net Notes Test_20141231 Test_20151231
> 1400 2701 Novafeltria 1959 1 1 12.289552 43.890057 293 NO NA NA NA NA NA
> NA NA NA CAE NA NO NO
> 1460 2702 Carpegna 1963 1 1 12.332614 43.778107 748 SI 702 2954 Carpegna
> Carpegna Carpegna 12.340618 43.780575 715 RT NA NO NO
> 1500 2703 Pesaro 1957 1 1 12.909822 43.910889 11 SI 112 1229 Pesaro
> Villa_Fastiggi Villa_Fastiggi 12.86939 43.890610 22 RT NA YES YES
> 1520 2704 Fano 1957 1 1 13.017591 43.840054 4 SI 152 2671 Fano
> Foce_Metauro Metaurilia 13.053796 43.826328 7.12 RT NA YES YES
>
> I load it with
> Storia_RM_RT <- read.table(file="Storia_RM_RT.txt", header = TRUE, sep="
> ", dec = ".", stringsAsFactors = FALSE)
>
> print(Storia_RM_RT$Test_20151231[Storia_RM_RT$Station_RM == 1500])
> gives [1] "YES"

So you have unique value here

>
> while
> print(Storia_RM_RT$Omogenea_20151231[Storia_RM_RT$Station_RT ==
> 112]) gives
> [1] NA   "YES"

and two values here, one is NA

see

dat<-data.frame(x1=c("a", "a", "b", NA), x2=c(1,2,3,3))
dat$x1<-as.character(dat$x1)

> dat$x1[dat$x2==1]
[1] "a"
> dat$x1[dat$x2==2]
[1] "a"
> dat$x1[dat$x2==3]
[1] "b" NA
>

You should consult R intro to understand basic object types, their distinctions 
and language basics.

Cheers
Petr


>
>
> print(lapply(Storia_RM_RT, class)) gives
>
> $Station_RM
> [1] "integer"
>
> $Sensor_RM
> [1] "integer"
>
> $Place_RM
> [1] "character"
>
> $Y_init_RM
> [1] "integer"
>
> $M_init_RM
> [1] "integer"
>
> $D_init_RM
> [1] "integer"
>
> $Long_cent_RM
> [1] "numeric"
>
> $Lat_cent_RM
> [1] "numeric"
>
> $Height_RM
> [1] "integer"
>
> $Continues
> [1] "character"
>
> $Station_RT
> [1] "integer"
>
> $Sensor_RT
> [1] "integer"
>
> $Place_RT
> [1] "character"
>
> $Name1_RT
> [1] "character"
>
> $Name2_RT
> [1] "character"
>
> $Long_cent_RT
> [1] "numeric"
>
> $Lat_cent_RT
> [1] "numeric"
> $Quota_RT
> [1] "numeric"
>
> $Actual_net
> [1] "character"
>
> $Notes
> [1] "logical"
>
> $Test_20141231
> [1] "character"
>
> $Test_20151231
> [1] "character"
>
> I am struggling to understand why the query through the field Station_RT
> does not work.
> Could please somebody help me to manage correctly the missing values? Is
> the mistake somewhere else?
>
> Thank you
> Stefano Sofia
>
>
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