[R] Calculate daily means from 5-minute interval data
jdnewm|| @end|ng |rom dcn@d@v|@@c@@u@
Thu Sep 2 21:40:46 CEST 2021
Regardless of whether you use the lower-level split function, or the higher-level aggregate function, or the tidyverse group_by function, the key is learning how to create the column that is the same for all records corresponding to the time interval of interest.
If you convert the sampdate to POSIXct, the tz IS important, because most of us use local timezones that respect daylight savings time, and a naive conversion of standard time will run into trouble if R is assuming daylight savings time applies. The lubridate package gets around this by always assuming UTC and giving you a function to "fix" the timezone after the conversion. I prefer to always be specific about timezones, at least by using so something like
Sys.setenv( TZ = "Etc/GMT+8" )
which does not respect daylight savings.
Regarding using character data for identifying the month, in order to have clean plots of the data I prefer to use the trunc function but it returns a POSIXlt so I convert it to POSIXct:
discharge$sampmonthbegin <- as.POSIXct( trunc( discharge$sampdate, units = "months" ) )
Then any of various ways can be used to aggregate the records by that column.
On September 2, 2021 12:10:15 PM PDT, Andrew Simmons <akwsimmo using gmail.com> wrote:
>You could use 'split' to create a list of data frames, and then apply a
>function to each to get the means and sds.
>cols <- "cfs" # add more as necessary
>S <- split(discharge[cols], format(discharge$sampdate, format = "%Y-%m"))
>means <- do.call("rbind", lapply(S, colMeans, na.rm = TRUE))
>sds <- do.call("rbind", lapply(S, function(xx) sapply(xx, sd, na.rm =
>On Thu, Sep 2, 2021 at 3:01 PM Rich Shepard <rshepard using appl-ecosys.com>
>> On Thu, 2 Sep 2021, Rich Shepard wrote:
>> > If I correctly understand the output of as.POSIXlt each date and time
>> > element is separate, so input such as 2016-03-03 12:00 would now be 2016
>> > 03 12 00 (I've not read how the elements are separated). (The TZ is not
>> > important because all data are either PST or PDT.)
>> Using this script:
>> discharge <- read.csv('../data/water/discharge.dat', header = TRUE, sep =
>> ',', stringsAsFactors = FALSE)
>> discharge$sampdate <- as.POSIXlt(discharge$sampdate, tz = "",
>> format = '%Y-%m-%d %H:%M',
>> optional = 'logical')
>> discharge$cfs <- as.numeric(discharge$cfs, length = 6)
>> I get this result:
>> > head(discharge)
>> sampdate cfs
>> 1 2016-03-03 12:00:00 149000
>> 2 2016-03-03 12:10:00 150000
>> 3 2016-03-03 12:20:00 151000
>> 4 2016-03-03 12:30:00 156000
>> 5 2016-03-03 12:40:00 154000
>> 6 2016-03-03 12:50:00 150000
>> I'm completely open to suggestions on using this output to calculate
>> means and sds.
>> If dplyr:summarize() will do so please show me how to modify this command:
>> disc_monthly <- ( discharge
>> %>% group_by(sampdate)
>> %>% summarize(exp_value = mean(cfs, na.rm = TRUE))
>> because it produces daily means, not monthly means.
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>> and provide commented, minimal, self-contained, reproducible code.
> [[alternative HTML version deleted]]
>R-help using r-project.org mailing list -- To UNSUBSCRIBE and more, see
>PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
>and provide commented, minimal, self-contained, reproducible code.
Sent from my phone. Please excuse my brevity.
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