Man pages for ArnaudDroitLab/RJMCMCNucleosomes
Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-read data (MNase-Seq)

mergeAllRDSFilesMerge nucleosome information
mergeAllRDSFilesFromDirectoryMerge nucleosome information from all RDS files present in a...
mergeRDSFilesMerge nucleosome information from selected RDS files.
plotNucleosomesGenerate a graph of nucleosome positions with read coverage
postMergeA internal post treatment function to merge closely...
postTreatmentA post-treatment function to merge closely positioned...
print.rjmcmcNucleosomesFormated output of predicted nucleosomes
print.rjmcmcNucleosomesBeforeAndAfterPostTreatmentFormated output of predicted nucleosomes
print.rjmcmcNucleosomesMergeFormated output of predicted nucleosomes
reads_demo_01Forward reads and reverse reads in 'GRanges' format (for demo...
reads_demo_02Forward reads and reverse reads in 'GRanges' format (for demo...
rjmcmcNucleosome positioning mapping on a segment
rjmcmcCHRNucleosome positioning mapping on a large segment, up to a...
rjmcmcNucleoInterface for the RJMCMC nucleosome mapping method in C++
RJMCMCNucleosomes-packageRJMCMCNucleosomes: Bayesian hierarchical model for...
RJMCMC_resultNucleosomes obtained by running RJMCMC function using reads...
runCHRRun 'rjmcmc' on multiples segments and merge results.
segmentationSplit a 'GRanges' containing reads in a list of smaller...
syntheticNucleosomeReadsSimulated dataset of reads generated by 'nucleoSim' package...
validateDirectoryParametersParameters validation for the 'mergeAllRDSFilesFromDirectory'...
validatePlotNucleosomesParametersParameters validation for the 'plotNucleosomes' function
validatePrepMergeParametersParameters validation for the 'postMerge' function
validateRDSFilesParametersParameters validation for the 'mergeRDSFiles' function
validateRJMCMCParametersParameters validation for the 'rjmcmc' function
validateSegmentationParametersParameters validation for the 'segmentation' function
ArnaudDroitLab/RJMCMCNucleosomes documentation built on Sept. 17, 2017, 4:04 p.m.