Package: Thresher 1.1.4

Kevin R. Coombes

Thresher: Threshing and Reaping for Principal Components

Defines the classes used to identify outliers (threshing) and compute the number of significant principal components and number of clusters (reaping) in a joint application of PCA and hierarchical clustering. See Wang et al., 2018, <doi:10.1186/s12859-017-1998-9>.

Authors:Kevin R. Coombes

Thresher_1.1.4.tar.gz
Thresher_1.1.4.tar.gz(r-4.5-noble)Thresher_1.1.4.tar.gz(r-4.4-noble)
Thresher_1.1.4.tgz(r-4.4-emscripten)Thresher_1.1.4.tgz(r-4.3-emscripten)
Thresher.pdf |Thresher.html✨
Thresher/json (API)
NEWS

# Install 'Thresher' in R:

install.packages('Thresher', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://r-forge.r-project.org/projects/oompa

Datasets:

savedReap - Thresher and Reaper Simulated Data
savedSims - Thresher and Reaper Simulated Data
sigma - Thresher and Reaper Simulated Data

clustering

3.97 score 3 packages 26 scripts 575 downloads 4 mentions 19 exports 24 dependencies

Last updated 7 months agofrom:0ad12905a8. Checks:OK: 1 NOTE: 1. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Oct 26 2024
R-4.5-linux	NOTE	Oct 26 2024

Exports:bestMetric countAgreement getColors getSplit getStyles heat image labelAccuracy labelMatcher makeFigures matchLabels plot Reaper remap scatter screeplot SimThresher Thresher unitize

Dependencies:ade4 Biobase BiocGenerics changepoint ClassDiscovery clue cluster colorspace cpm kernlab lattice MASS mclust movMF oompaBase oompaData PCDimension pixmap Rcpp RcppArmadillo skmeans slam sp zoo

Thresher

Rendered fromThresher.Rnwusingutils::Sweaveon Oct 26 2024.

Last update: 2018-04-11
Started: 2018-04-11

Citation

Readme and manuals

Help Manual

Help page	Topics
Generic Methods in the Thresher package	getColors getColors,ANY-method getSplit getSplit,ANY-method getStyles getStyles,ANY-method heat heat,ANY-method makeFigures makeFigures,ANY-method scatter scatter,ANY-method
Match Arbitrary Class Assignments Across Methods	bestMetric countAgreement labelAccuracy labelMatcher matchLabels remap
Class '"Reaper"'	getColors,Reaper-method getSplit,Reaper-method getStyles,Reaper-method makeFigures,Reaper-method Reaper Reaper-class
Class '"SignalSet"'	SignalSet SignalSet-class
Class '"SimThresher"'	image,SimThresher-method makeFigures,SimThresher-method SimThresher SimThresher-class
Class Unions	fit or miss-class number or miss-class
Class '"Thresher"'	getColors,Thresher-method getSplit,Thresher-method getStyles,Thresher-method heat,Thresher-method makeFigures,Thresher-method plot,Thresher,missing-method scatter,Thresher-method screeplot,Thresher-method Thresher Thresher-class
Thresher and Reaper Simulated Data	savedReap savedSims sigma Thresher-data
Convert a Vector to Unit Length	unitize