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seqbias (version 1.20.0)

Estimation of per-position bias in high-throughput sequencing data

Description

This package implements a model of per-position sequencing bias in high-throughput sequencing data using a simple Bayesian network, the structure and parameters of which are trained on a set of aligned reads and a reference genome sequence.

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Version

Version

1.20.0

License

LGPL-3

Maintainer

Daniel Jones

Last Published

February 15th, 2017

Functions in seqbias (1.20.0)

kmer.freq

Measuring positional kmer frequencies
seqbias.predict

Predicting sequencing bias
seqbias

The seqbias model
seqbias.save

Saving seqbias models
count.reads

Counting reads across intervals
random.intervals

Generating random genomic intervals
seqbias-package

'seqbias' modeling bias in high-throughput sequencing data
seqbias.load

Loading seqbias models
seqbias.fit

Fitting seqbias models