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 |
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 |
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 |
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 |
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 |
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 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 |