ADaCGH is a
web tool for the analysis of aCGH data sets. We focus
on calling gains and losses and estimating the number of copy changes.
ADaCGH will continue being maintained, but is deprecated. Our new tool
for CGH and CNV is WaviCGH.
To use ADaCGH
provide either one or two files. If you only provide one file, that file
must contain also coordinates (location information) of each of the
genes/clones. If you provide two different files, one must contain the the
aCGH data themselves and another one the mapping of those
genes/clones to positions in chromosomes.
Centering is done on a per-array basis. Some methods do require that
data be centered, and for others centering simplifies
interpretation. See further details in the help
CBS: Olshen & Venkatraman's
circular binary segmentation (CBS).
HMM: Fridlyand et al.'s
homogeneous Hidden Markov Model (HMM).
BioHMM: Marioni et al.'s
non-homogeneous HMM. This is the only method that incorporates
distance between probes
CGHseg: Piccard et al.'s
GLAD: Huppé et al.'s Gain and
Loss Analysis of DNA (GLAD).
To provide clickable links (that take you to
IDClight the one-query-version of our
IDConverter) in the results.
Floating-point numbers, such as 0.001, can be specified as either "0.001",
"1e-3" or "1E-3" (without the "", of course). Anything else will produce
Click "Submit" to send the data to the server and start execution. If the
servers are too busy, you will be asked to try again later.