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timma (version 1.2.0)

Target Inhibition Interaction using Maximization and Minimization Averaging

Description

Target Inhibition Interaction using Maximization/Minimization Averaging

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Version

Install

install.packages('timma')

Monthly Downloads

Version

1.2.0

License

Artistic License 2.0

Maintainer

Liye He

Last Published

January 11th, 2015

Functions in timma (1.2.0)

dec2bin

Convert decimal values to binary values

sffsBinary

Model selection with sffs for the binary drug-target interaction data

findSameSet

Find the same columns from two matrices

The combination index extracted from Figure 1B of the Miller study

mincpp

Search for the min values of 3D matrix in cpp

tyner_interaction_multiclass

A multi-class drug-target interaction data

sumcpp1

Sum for 2D matrix in cpp

sffsCategoryWeighted

Model selection with sffs for the multi-class drug-target interaction data using one.sided and weighted TIMMA model

drawGraph

Draw graph function

maxcpp

Search for the max values of 3D matrix in cpp

binarySet

Search for supersets and subsets

davis

Drug-target profile for 72 drugs and 442 targets.

timmaModel

Predicting drug sensitivity with binary drug-target interaction data

timmaCategoryWeighted

Predicting drug sensitivity with multi-class drug-target interaction data using one.sided and weighted TIMMA model

timmaBinary

Predicting drug sensitivity with binary drug-target interaction data

graycode2

Graycode Function

binarizeDrugTargets

Binarize the drug target profile data

Model selection with sffs for the binary drug-target interaction data using two.sided TIMMA model

sffsCategoryWeighted1

Model selection with sffs for the multi-class drug-target interaction data using two.sided and weighted TIMMA model

getBinary

Binary set for multiclass data

mincpp1

Search for the min values of 2D matrix in cpp

maxcpp1

Search for the max values of 2D matrix in cpp

timmaCategory

Predicting drug sensitivity with multi-class drug-target interaction data using one.sided TIMMA model

timmaModel1

Predicting drug sensitivity with binary drug-target interaction data using two.sided TIMMA model

findSameCol

Find the same column from a matrix

normalizeSensitivity

Normalize the drug sensitivity data

searchSpace

Generate search space

miller_sensitivity

The scaled drug sensitivity data for the Miller drugs

tyner_interaction_binary

A binary drug-target interaction data

graycode3

Gray code function for matrix indexes

getBinary1

Weighted binary set for multiclass data

miller_targets

The curated drug-target data for the Miller drugs

sffsCategory1

Model selection with sffs for the multi-class drug-target interaction data using two.sided TIMMA model

miller_drug_response

The single drug does-response data from the Miller study

drugRank

Generate the list of ranked drug combinations

timma

Main function for the timma package

sffsCategory

Model selection with sffs for the multi-class drug-target interaction data using one.sided TIMMA model

timmaBinary1

Predicting drug sensitivity with binary drug-target interaction data using modified maximization and minimization rules

timmaSearchBinary

Prediction in the search space with one.sided TIMMA model

timmaSearchBinary1

Prediction in the search space with two.sided TIMMA model

sumcpp

Sum for 3D matrix

tyner_sensitivity

The drug sensitivity data

timmaCategoryWeighted1

Predicting drug sensitivity with multi-class drug-target interaction data using two.sided and weighted TIMMA model

floating2

Filter targets

kiba

Kiba interaction data

timmaCategory1

Predicting drug sensitivity with multi-class drug-target interaction data using two.sided TIMMA model

timma-package

Target Inhibition inference using Maximization and Minimization Averaging

miller_drugs

A drug list from Miller study

miller_interaction_binary

The binarized drug-target data for the Miller drugs

sffsBinary2

Model selection with filtered binary drug-target interaction data

graycodeNames

Names for the predicted sensitivity matrix