Running this process for the subset of the Affymetrix
SNPv6
demo data set generates the
Results
window shown below. Refer to the
Affymetrix SNP CHP Input Engine
process description for more information.
The
Results
window contains the following elements:
|
•
|
Annotation Data Set:
This data set is a modified version of the input
annotation data set
. The order of the rows has been sorted to match the order of the
SNP
markers in the output data set.
Note
: In this example, this data set is too large to conveniently open in JMP. You should click
to view an
.html
file listing the first 100 rows of the data set.
|
|
•
|
Experimental Design Data Set (EDDS)
: This data set lists specific information about experimental details for each of the arrays. Refer to
Experimental Design Data Set (EDDS)
for more information about this data set. Click
to view the data set.
|
|
•
|
Genotype Data Set
: This data set contains the
genotype
data from the different
.chp
files. Genotype data is in the
Genotypic
format, with two
alleles
, separated by a “
/
” delimiter, in one column.
Note
: In this example, this data set is too large to conveniently open in JMP. You should click
to view an
.html
file listing the first 100 rows of the data set.
|
|
•
|
CHP Header Data Set
: This data set contains all the parameters in the header portion of each .
chp
file. These parameters include the algorithm applied, the type of chip used, the program applied, and other quality control information among the control l
probes
. The parameters are listed in columns, while the individual
.chp
files are listed in rows. Click
to view the data set.
|
|
•
|
: Click to launch the
Basic Genetics Workflow
process with the output data set and the EDDS specified as input.
|
|
•
|
Click
to reopen the completed process dialog used to generate this output.
|
|
•
|
Click
to close all graphics windows and underlying data sets associated with the output.
|