Package: infinityFlow 1.17.0

Etienne Becht

infinityFlow: Augmenting Massively Parallel Cytometry Experiments Using Multivariate Non-Linear Regressions

Pipeline to analyze and merge data files produced by BioLegend's LEGENDScreen or BD Human Cell Surface Marker Screening Panel (BD Lyoplates).

Authors:Etienne Becht [cre, aut]

# Install 'infinityFlow' in R:

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

Datasets:

steady_state_lung - Subset of a massively parallel cytometry experiment of mouse lung single cells
steady_state_lung_annotation - Target and isotypes annotation for the data object infinityFlow::steady_state_lnug
steady_state_lung_backbone_specification - Backbone and Infinity antibodies specification for the data object infinityFlow::steady_state_lnug

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

Last updated 3 months agofrom:ac4a2be88b. Checks:7 OK, 1 WARNING. Indexed: yes.

Etienne Becht

Last update: 2021-10-10
Started: 2020-06-19

Etienne Becht

Last update: 2021-05-05
Started: 2020-06-25

Help page	Topics
Wrapper to glmnet. Defined separetely to avoid passing too many objects in parLapplyLB	fitter_glmnet
Wrapper to linear model training. Defined separetely to avoid passing too many objects in parLapplyLB	fitter_linear
Wrapper to Neural Network training. Defined separetely to avoid passing too many objects in parLapplyLB	fitter_nn
Wrapper to SVM training. Defined separetely to avoid passing too many objects in parLapplyLB	fitter_svm
Wrapper to XGBoost training. Defined separetely to avoid passing too many objects in parLapplyLB	fitter_xgboost
Wrapper to the Infinity Flow pipeline	infinity_flow
For each parameter in the FCS files, interactively prompts whether it is part of the Backbone, the Infinity (exploratory) markers or should be ignored.	select_backbone_and_exploratory_markers
Subset of a massively parallel cytometry experiment of mouse lung single cells	steady_state_lung
Target and isotypes annotation for the data object infinityFlow::steady_state_lnug	steady_state_lung_annotation
Backbone and Infinity antibodies specification for the data object infinityFlow::steady_state_lnug	steady_state_lung_backbone_specification