Finding the consensus classification using anonymous functions (CC284)

Опубликовано: 20 Май 2024
на канале: Riffomonas Project

653

With 100 classification strings, we now need to find the consensus classification across those bootstrapped replicates. We'll make use of anonymous functions with the base R lapply and sapply functions. Of course we'll also make use of test driven development using the testthat package.This episode is part of an ongoing effort to develop an R package that implements the naive Bayesian classifier.

If you want to get a physical copy of R Packages: https://amzn.to/43pMR8L
If you want a free, online version of R packages: https://r-pkgs.org/

You can find my blog post for this episode at https://www.riffomonas.org/code_club/....

Check out the GitHub repository at the:
Beginning of the episode: https://github.com/riffomonas/phyloty...
End of the episode: https://github.com/riffomonas/phyloty...

#rstats #refactor #testthat #tdd #microbenchmark #vectors #rdp #16S #classification #classifier #microbialecology #microbiome

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0:00 Introduction
3:37 Game plan for classifying unknown sequences
10:26 Developing test for consensus function
14:28 Writing code to find consensus (Part 1)
16:58 Developing and testing consensus helper
23:07 Writing code to find consensus (Part 2)
Using real 16S rRNA gene sequence