Calculate the Standard Molecular Fingerprints (in Compact Format)

Description

Calculate the Standard Molecular Fingerprints (in Compact Format)

Usage

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extractDrugStandard(molecules, depth = 6, size = 1024, silent = TRUE)

Arguments

molecules

Parsed molucule object.

depth

The search depth. Default is 6.

size

The length of the fingerprint bit string. Default is 1024.

silent

Logical. Whether the calculating process should be shown or not, default is TRUE.

Details

Calculate the standard molecular fingerprints. Considers paths of a given length. This is hashed fingerprints, with a default length of 1024.

Value

A list, each component represents one of the molecules, each element in the component represents the index of which element in the fingerprint is 1. Each component's name is the length of the fingerprints.

Author(s)

Nan Xiao <http://nanx.me>

See Also

extractDrugStandardComplete

Examples

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smi = system.file('vignettedata/FDAMDD.smi', package = 'Rcpi')

mol = readMolFromSmi(smi, type = 'mol')
fp  = extractDrugStandard(mol)
head(fp)

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