RJMCMC_result {RJMCMCNucleosomes} | R Documentation |
A list
of class
"rjmcmcNucleosomes" which contains the information about the
detected nucleosomes.
data(RJMCMC_result)
A list
of class
"rjmcmcNucleosomes" containing:
call
the matched call.
k
a integer
, the final estimation of the number
of nucleosomes. 0
when no nucleosome is detected.
mu
a vector
of numeric
of length
k
, the positions of the nucleosomes. NA
when no nucleosome is
detected.
k_max
a integer
, the maximum number of nucleosomes
obtained during the iteration process. NA
when no nucleosome is
detected.
A list
of class
"rjmcmcNucleosomes" containing:
call
the matched call.
k
a integer
, the final estimation of the number
of nucleosomes. 0
when no nucleosome is detected.
mu
a vector
of numeric
of length
k
, the positions of the nucleosomes. NA
when no nucleosome is
detected.
k_max
a integer
, the maximum number of nucleosomes
obtained during the iteration process. NA
when no nucleosome is
detected.
rjmcmc
for profiling of nucleosome positions
rjmcmcCHR
for profiling of nucleosome positions
for a large region. The function will take care of spliting and
merging.
segmentation
for spliting a GRanges
containing reads in a list of smaller segments for
the rjmcmc
function.
postTreatment
for merging closely positioned
nucleosomes
mergeRDSFiles
for merging nucleosome information
from selected RDS files.
plotNucleosomes
for generating a graph containing
the nucleosome positions and the read coverage.
## Loading dataset data(RJMCMC_result) data(reads_demo_02) ## Results before post-treatment RJMCMC_result$mu ## Post-treatment function which merged closely positioned nucleosomes postResult <- postTreatment(reads = reads_demo_02, extendingSize = 60, chrLength = 100000, resultRJMCMC = RJMCMC_result) ## Results after post-treatment postResult