models: Models

Description Usage Arguments Details Value Examples

Description

Models used for predicting sample label ("POS": robustly maps R-loops; "NEG": poorly maps R-loops ) based on R-loop-forming sequences analysis (RLSeq::analyzeRLFS()). These models are used with RLSeq::predictCondition().

Usage

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fft_model(quiet = FALSE)

prep_features(quiet = FALSE)

Arguments

quiet

If TRUE, messages are suppressed. Default: FALSE.

Details

Source

The models were developed as part of a semi-automated online learning scheme found in the RLBase-data protocol here. Briefly, R-loop-forming sequences (RLFS) analysis was performed using RLSeq::analyzeRLFS() for every sample peakset in RLBase (see rlfs_res for full results). The samples were then manually inspected and any which starkly differed from their label were removed. Out of 693 possible samples, 135 were excluded due to a mismatch with their label. The remaining steps were performed automatically.

Structure

Usage

These models are used internally by RLSeq::predictCondition().

Value

A model object from the caret package.

Examples

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fftModel <- fft_model()

pfModel <- prep_features()

Bishop-Laboratory/RLHub documentation built on Jan. 20, 2022, 3:47 p.m.