README.md

In Russel88/COEF: COEF: Collection Of Esoteric Functions

COEF: Collection Of Esoteric Functions

Installation

library(devtools)
install_github("Russel88/COEF")

read_elisa

Seamless loading of data from ELISA plate reader, including descriptions.

It will load excel files, and can automatically locate the 96 well plate as long as there is only data from 1 plate in 1 excel file.

The function will also load descriptions of what is in each well of the 96 well plate. These descriptions should be in the same excel file, but in seperate sheets. See the example data for how to set it up.

The input is the path for where the excel file is located, e.g. paths="C:/Users/mystuff/file.xlsx"), or if several excel files should be loaded at the same time write the path for the folder containing the excel files (it should contain nothing else than excel files): e.g. paths="C:/Users/mystuff/".

See the example data here, which can be loaded like this:

data <- read_elisa(paths = "test.xlsx", descriptions = 2)

The following error might arise:

Error in read_fun(path = path, sheet = sheet, limits = limits, shim = shim,  : 
  Evaluation error: zip file 'X.xlsx' cannot be opened.'

This is because 'X.xlsx' is in the path argument but does not exist.

fancy_scientific

Numeric to fancy scientific notation. By Brian Diggs

How to use it:

library(ggplot2)
library(COEF)
data(mtcars)
ggplot(mtcars, (aes(cyl, wt))) +
  geom_point()+
  scale_y_continuous(labels = fancy_scientific)

tls

Total Least Squares for ggplot stat_smooth and geom_smooth with bootstrapped confidence intervals

Remember that x and y has to be on the same scale!

How to use it:

library(ggplot2)
library(COEF)
data(mtcars)
ggplot(mtcars, (aes(scale(mpg), scale(disp)))) +
  geom_point() +
  geom_smooth(method = "tls", colour = "red") +
  geom_smooth(method = "lm", colour = "blue")

p2bayes

Estimate the maximum possible Bayes factor from a p-value

Bayes factor is here the ratio of the likelihood probability of the alternative versus the null hypothesis.

library(COEF)

p2bayes(0.05)

## [1] 2.456023

prune_by_group

Prune taxa from a phyloseq object such that taxa are present in at least proportion P in at least one "Group" of samples.

library(COEF)

prune_by_group(physeq, "Group", P = 0.5)

Russel88/COEF documentation built on Feb. 9, 2020, 1:48 p.m.