Repeating and parallelizing a function in R with the purrr and furrr packages (CC192) скачать в хорошем качестве

Repeating and parallelizing a function in R with the purrr and furrr packages (CC192)

In this episode Pat writes a function in R that needs to be repeated for different input values. He shows how to do this with purrr's map_dfr and then speeds things up by parallelizing it with furrr's future_map_dfr. The specific question in this episode is how the sampling depth of communities impacts pairwise Bray-Curtis distances calculated using avgdist from vegan. He'll show how to synthesize and visualize the data using tools from dplyr, ggplot2, and other tidyverse packages. You can find my blog post for this episode at https://www.riffomonas.org/code_club/.... The data were generated in our Kozich et al. 2013 paper (http://doi.org/10.1128/AEM.01043-13) using samples from the Schloss et al. 2012 paper (http://doi.org/10.4161/gmic.21008). #cut_width #geom_smooth #geom_density #ggplot2 #R #Rstudio #Rstats Want more practice on the concepts covered in Code Club? You can sign up for my weekly newsletter at https://shop.riffomonas.org/youtube to get practice problems, tips, and insights. If you're interested in taking an upcoming 3 day R workshop be sure to check out our schedule at https://riffomonas.org/workshops/ You can also find complete tutorials for learning R with the tidyverse using... Microbial ecology data: https://www.riffomonas.org/minimalR/ General data: https://www.riffomonas.org/generalR/ 0:00 Assessing effect of sampling depth on pairwise Bray-Curtis distances 4:58 Rarefy Bray-Curtis distances for a single sequencing depth 9:10 Construct function to rarefy to different depths 11:29 Iterate over different depths with map_dfr 13:32 Iterate over different depths with future_map_dfr 16:27 Visualizing results