[R] Boot function blows up

From: Jack Tuomikoski <jackt_at_fpc.org>
Date: Thu, 08 May 2008 15:18:36 -0700


I have a question regarding the boot function. I am non-parametrically bootstrapping a function that I've written to estimate survival for animals following some closed form estimators (i.e. no optimization needed). I'm using the boot function for this and it performs well when using inputs with say less than 30,000 animals (each record = one animal with 4 columns of info). With larger datasets (~50,000) animals, and 1000 bootstraps, the program errors out based on a lack of memory. The problem seems to be that the boot function creates the entire 1000 bootstrap databases at once; is the an option for the boot function where one can go through one iteration at a time (and save the output from that iteration which contains MUCH less information than the input)? In these sorts of studies, samples sizes of 50,000 animals are often required.

Thanks for any help,


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