amplicon.flag | Examples of flag objects to apply to CGH arrays |
arrayTrend | Spatial trend of microarray spots statistic |
arrayTrend.arrayCGH | Spatial trend of microarray spots statistic |
arrayTrend.default | 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 |
detectSB.arrayCGH | Spatial bias detection |
detectSB.default | 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 |
edge.norm | Examples of array-CGH data with spatial artifacts |
edge.txt | Examples of array-CGH data with spatial artifacts |
flag | Apply a flag to an arrayCGH |
flag.arrayCGH | Apply a flag to an arrayCGH |
flag.summary | Summarize information about flags after array normalization |
flag.summary.arrayCGH | Summarize information about flags after array normalization |
flag.summary.default | Summarize information about flags after array normalization |
flags | Examples of flag objects to apply to CGH arrays |
genome.plot | Pan-genomic representation of a normalized arrayCGH |
genome.plot.arrayCGH | Pan-genomic representation of a normalized arrayCGH |
genome.plot.default | 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 |
gradient.gpr | Examples of array-CGH data with spatial artifacts |
gradient.norm | Examples of array-CGH data with spatial artifacts |
html.report | Generate an HTML report of array normalization |
html.report.arrayCGH | Generate an HTML report of array normalization |
html.report.default | 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 |
intensity.flag | Examples of flag objects to apply to CGH arrays |
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 |
nem.arrayCGH | Spatial Classification by EM algorithm |
nem.default | Spatial Classification by EM algorithm |
norm | Normalize an object of type arrayCGH |
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.before.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 | arrayCGH quality score |
qscore.summary | Compute quality scores for a given arrayCGH object |
qscore.summary.arrayCGH | 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 | Array image and a genomic representation of a normalized arrayCGH |
report.plot.arrayCGH | Array image and a genomic representation of a normalized arrayCGH |
report.plot.default | 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 | Sorting for normalized arrayCGH objects |
sort.arrayCGH | Sorting for normalized arrayCGH objects |
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 |