CID.entropy |
Normalized Shannon entropy-based "unclassified" assignment |
CID.GetDistMat |
Computes distance matrix from edge list |
CID.IsUnique |
Extracts unique elements |
CID.LoadData |
Load data file from directory |
CID.LoadEdges |
Load edges from edge list for single cell network |
CID.Louvain |
Detects community substructure by Louvain community detection |
CID.Normalize |
Library size normalize |
CID.smooth |
Smoothing function |
CID.writeJSON |
Writes JSON file for SPRING integration |
GenerateLabels |
Generates cellular phenotype labels |
Genes_Of_Interest |
Genes of interest for drug discovery / disease biology research |
GetModels_HPCA |
Loads neural network models from GitHub |
GetTrainingData_HPCA |
Loads bootstrapped HPCA training data from GitHub |
KSoftImpute |
KNN-based imputation |
MASC |
Mixed effect modeling |
ModelGenerator |
Generates an ensemble of neural network models. |
SaveCountsToH5 |
Save count_matrix.h5 files for SPRING integration |
Signac |
Classification of cellular phenotypes in single cell data |
SignacBoot |
Generates bootstrapped single cell data |
SignacFast |
Fast classification of cellular phenotypes |