CGHcall-package |
Calling aberrations for array CGH tumor profiles. |
bpend |
Retrieve feature position data from cgh objects. |
bpend-method |
Class to contain and describe called array comparative genomic |
bpend-method |
Class to contain and describe raw or normalized array comparative |
bpend-method |
Class to contain and describe segmented array comparative genomic |
bpstart |
Retrieve feature position data from cgh objects. |
bpstart-method |
Class to contain and describe called array comparative genomic |
bpstart-method |
Class to contain and describe raw or normalized array comparative |
bpstart-method |
Class to contain and describe segmented array comparative genomic |
calls |
Retrieve copynumber data from cgh objects. |
calls-method |
Class to contain and describe called array comparative genomic |
calls<- |
Retrieve copynumber data from cgh objects. |
calls<--method |
Class to contain and describe called array comparative genomic |
CGHcall |
Calling aberrations for array CGH tumor profiles. |
cghCall |
Class to contain and describe called array comparative genomic |
cghCall-class |
Class to contain and describe called array comparative genomic |
cghRaw |
Class to contain and describe raw or normalized array comparative |
cghRaw-class |
Class to contain and describe raw or normalized array comparative |
cghSeg |
Class to contain and describe segmented array comparative genomic |
cghSeg-class |
Class to contain and describe segmented array comparative genomic |
chromosomes |
Retrieve feature position data from cgh objects. |
chromosomes-method |
Class to contain and describe called array comparative genomic |
chromosomes-method |
Class to contain and describe raw or normalized array comparative |
chromosomes-method |
Class to contain and describe segmented array comparative genomic |
class:cghCall |
Class to contain and describe called array comparative genomic |
class:cghRaw |
Class to contain and describe raw or normalized array comparative |
class:cghSeg |
Class to contain and describe segmented array comparative genomic |
copynumber |
Retrieve copynumber data from cgh objects. |
copynumber-method |
Class to contain and describe called array comparative genomic |
copynumber-method |
Class to contain and describe raw or normalized array comparative |
copynumber-method |
Class to contain and describe segmented array comparative genomic |
copynumber<- |
Retrieve copynumber data from cgh objects. |
copynumber<--method |
Class to contain and describe called array comparative genomic |
copynumber<--method |
Class to contain and describe raw or normalized array comparative |
copynumber<--method |
Class to contain and describe segmented array comparative genomic |
ExpandCGHcall |
Expands result fron CGHcall to CGHcall object. |
initialize-method |
Class to contain and describe called array comparative genomic |
initialize-method |
Class to contain and describe raw or normalized array comparative |
initialize-method |
Class to contain and describe segmented array comparative genomic |
make_cghRaw |
Convert a dataframe or textfile to an object of class cghRaw. |
normalize |
Normalization and cellularity adjustment for arrayCGH data. |
plot-method |
Class to contain and describe called array comparative genomic |
plot-method |
Class to contain and describe raw or normalized array comparative |
plot-method |
Class to contain and describe segmented array comparative genomic |
plot.summary |
Visualization of aCGH profiles. |
plot.summary-method |
Class to contain and describe called array comparative genomic |
postsegnormalize |
Post-segmentation normalization |
preprocess |
Preprocess arrayCGH data |
probamp |
Retrieve call probabilities from a cghCall object. |
probamp-method |
Class to contain and describe called array comparative genomic |
probamp<- |
Retrieve call probabilities from a cghCall object. |
probamp<--method |
Class to contain and describe called array comparative genomic |
probgain |
Retrieve call probabilities from a cghCall object. |
probgain-method |
Class to contain and describe called array comparative genomic |
probgain<- |
Retrieve call probabilities from a cghCall object. |
probgain<--method |
Class to contain and describe called array comparative genomic |
probloss |
Retrieve call probabilities from a cghCall object. |
probloss-method |
Class to contain and describe called array comparative genomic |
probloss<- |
Retrieve call probabilities from a cghCall object. |
probloss<--method |
Class to contain and describe called array comparative genomic |
probnorm |
Retrieve call probabilities from a cghCall object. |
probnorm-method |
Class to contain and describe called array comparative genomic |
probnorm<- |
Retrieve call probabilities from a cghCall object. |
probnorm<--method |
Class to contain and describe called array comparative genomic |
segmentData |
Breakpoint detection for arrayCGH data. |
segmented |
Retrieve copynumber data from cgh objects. |
segmented-method |
Class to contain and describe called array comparative genomic |
segmented-method |
Class to contain and describe segmented array comparative genomic |
segmented<- |
Retrieve copynumber data from cgh objects. |
segmented<--method |
Class to contain and describe called array comparative genomic |
segmented<--method |
Class to contain and describe segmented array comparative genomic |
Wilting |
Cervical cancer arrayCGH data |