What conditions warrant our “R-flat-file-happy” group toĬonsider a database? I asked and got great advice from members of the Several files (or 100’s….or 1,000’s) that make collaborating on the sameĭata easier. Maybe the data can be logically chunked into If a single file can be easily passed around to coworkers, and loadedĮntirely in memory directly in R, there doesn’t seem to be any reason toĬonsider a shared database. Hurdles are insurmountable, but we want to make sure our project and Resources on access to skilled database administrators.
Over the initial learning-curve or spend a fair amount of our limited The process of setting up a shared database? There’s overhead involved,Īnd our group would either need a spend a fair amount of time getting Our initial question was: when should we even consider going through There are many database options, and discussing the pros andĬons of each can fill a semester-long college course. Shared Databaseįirst question: should we set up a shared database?Ī database is probably many data scientist’s go-to tool for data storageĪnd access. Read and write some sample data, and the file size. Table lists all of the packages that were tested, the time it took to
#OPEN SQLITE FILE IN R CODE#
There are a lot of useful code examples below, but if you want to jumpĪhead to the final results, this table summarizes the results. I’ve taken some of his workflow, added more robust analysis for fst Karl Broman discusses his journey from flat files to “big-ish data”. In a blog post that laid out similar work: This post will attempt to lay out the options and summarize the pros and The takeaways I’ve learned was that there is not a single right answer. Readr and data.table), RDS, fst, sqlite, feather, monetDB. This blog explores the options: csv (both from
We’re still notĪnywhere in the “BIG DATA (TM)” realm, but big enough to warrantĮxploring options. Projects are creeping up to be bigger and bigger. Recently however, the data involved in our Sometimes, the files get a bit large, so weĬreate a set of files…but basically we’ve been fine without wading into The vast majority of the projects that my data science team works on useįlat files for data storage. Reading Time 15 minutes Share Introduction
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