Perform Methylation Analysis on Next Generation Sequencing Data

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Documentation for package ‘MethTargetedNGS’ version 1.40.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

MethTargetedNGS-package	Methylation Analysis of Next Generation Sequencing data.
bconv	Convert non-bisulfite sequences to bisulfite sequences.
compare_samples	Complete Methylation Analysis of Next Generation Sequencing Data
fishertest_cpg	Perform Fisher Exact Test on Methylation Data.
hmmbuild	Create Profile Hidden Markov Model of given aligned sequences
methAlign	Align sequences with the reference sequence using pairwiseAlignment function from the pwalign package
methAvg	Calculate Methylation Average of given methylation matrix
methEntropy	Calculate Methylation Entropy
methHeatmap	Generate Heatmap of the given methylation data.
MethTargetedNGS	Methylation Analysis of Next Generation Sequencing data.
nhmmer	Calculate likelihood of the given profile hidden markov model against group of sequences
odd_ratio	Calculate log odd ratio of the given samples (healthy/tumor)