Micro-Array NORmalization


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Documentation for package `MANOR' version 1.2.0

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Help Pages

amplicon.flag Examples of flag objects to apply to CGH arrays
arrayTrend Spatial trend of microarray spots statistic
chromosome.flag Examples of flag objects to apply to CGH arrays
clone.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
control.flag Examples of flag objects to apply to CGH arrays
dapi.snr.flag Examples of flag objects to apply to CGH arrays
detectSB Spatial bias detection
dyn.x.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
dyn.y.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
dynamics.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
edge Examples of array-CGH data with spatial artifacts
flag Create an object of type flag
flag.arrayCGH Apply a flag to an arrayCGH
flag.summary Summarize information about flags after array normalization
flags Examples of flag objects to apply to CGH arrays
genome.plot Display a pan-genomic representation of a normalized arrayCGH
global.spatial.flag Examples of flag objects to apply to CGH arrays
gradient Examples of array-CGH data with spatial artifacts
html.report Generate an HTML report of array normalization
import Import raw file to an arrayCGH object
import.default.aux Import raw file to an arrayCGH object
import.gpr.aux Import raw file to an arrayCGH object
import.spot.aux Import raw file to an arrayCGH object
local.spatial.flag Examples of flag objects to apply to CGH arrays
MANOR Normalize an object of type arrayCGH
manor Normalize an object of type arrayCGH
nem Spatial Classification by EM algorithm
norm.arrayCGH Normalize an object of type arrayCGH
pct.clone.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
pct.replicate.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
pct.spot.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
position.flag Examples of flag objects to apply to CGH arrays
qscore Create an object of type qscore
qscore.arrayCGH Compute a quality score for a given arrayCGH
qscore.summary Compute quality scores for a given arrayCGH object
ref.snr.flag Examples of flag objects to apply to CGH arrays
rep.flag Examples of flag objects to apply to CGH arrays
replicate.flag Examples of flag objects to apply to CGH arrays
report.plot Display an array image and a genomic representation of a normalized arrayCGH
smoothness.qscore Examples of qscore objects (quality scores) to apply to CGH arrays
SNR.flag Examples of flag objects to apply to CGH arrays
sort.arrayCGH sort clone-level information of a normalizaed arrayCGH object
spatial Examples of array-CGH data with spatial artifacts
spatial.flag Examples of flag objects to apply to CGH arrays
spot.flag Examples of flag objects to apply to CGH arrays
to.flag Create an object of type flag
to.qscore Create an object of type qscore
unique.flag Examples of flag objects to apply to CGH arrays
val.mark.flag Examples of flag objects to apply to CGH arrays
var.replicate.qscore Examples of qscore objects (quality scores) to apply to CGH arrays