Package: hypergate 0.8.5

Etienne Becht

hypergate: Machine Learning of Hyperrectangular Gating Strategies for High-Dimensional Cytometry

Given a high-dimensional dataset that typically represents a cytometry dataset, and a subset of the datapoints, this algorithm outputs an hyperrectangle so that datapoints within the hyperrectangle best correspond to the specified subset. In essence, this allows the conversion of clustering algorithms' outputs to gating strategies outputs.

Authors:Etienne Becht [cre, aut], Samuel Granjeaud [ctb]

hypergate_0.8.5.tar.gz
hypergate_0.8.5.tar.gz(r-4.5-noble)hypergate_0.8.5.tar.gz(r-4.4-noble)
hypergate_0.8.5.tgz(r-4.4-emscripten)hypergate_0.8.5.tgz(r-4.3-emscripten)
hypergate.pdf |hypergate.html
hypergate/json (API)

# Install 'hypergate' in R:
install.packages('hypergate', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

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Datasets:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

2.70 score 28 scripts 189 downloads 13 exports 0 dependencies

Last updated 11 months agofrom:8eb34092ba. Checks:OK: 2. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 12 2024
R-4.5-linuxOKDec 12 2024

Exports:boolmatchannels_contributionscolor_biplot_by_discreteF_betagate_from_biplothgate_infohgate_phenohgate_rulehgate_samplehypergateplot_gating_strategyreoptimize_strategysubset_matrix_hg

Dependencies:

Hypergate

Rendered fromHypergate.Rmdusingknitr::rmarkdownon Dec 12 2024.

Last update: 2019-04-17
Started: 2018-05-14

Readme and manuals

Help Manual

Help pageTopics
boolmatboolmat
channels_contributionschannels_contributions
Colors a biplot according to a vector with discrete valuescolor_biplot_by_discrete
contractcontract
contract.updatecontract.update
coreloopcoreloop
Wrapper to locator that plots segments on the flyen.locator
expandexpand
expand.updateexpand.update
ff
F_betaF_beta
fill_FNTN_matrixfill_FNTN_matrix
FNTN_matrix.recycleFNTN_matrix.recycle
gate_from_biplotgate_from_biplot
hgate_infohgate_info
hgate_phenohgate_pheno
hgate_rulehgate_rule
hgate_samplehgate_sample
hypergatehypergate
plot_gating_strategyplot_gating_strategy
Remove self intersection in polygonspolygon.clean
reoptimize_strategyreoptimize_strategy
2000 events randomly sampled from the 'Samusik_01' datasetSamusik_01_subset
subset_matrix_hgsubset_matrix_hg
Updates a gate vectorupdate_gate