DAVIDCluster-class: class "DAVIDCluster
Description
This virtual class represents the output of a DAVID
"Cluster" report, with "DAVIDTermCluster" and
"DAVIDGeneCluster" as possible heirs, according to the
report used.
Type
This class is a "Virtual
" one.Extends
- DAVIDResult in the conceptual way.
Heirs
-
DAVIDTermCluster
: DAVID's
Functional Annotation Clustering report.
-
DAVIDGeneCluster
: DAVID's Functional
Classification Tool report.
Slots
cluster
- named list with the
different clustered terms/genes: Members, represented as
DAVIDGenes object; and EnrichmentScore, a numeric with
DAVID cluster enrichment score.
Methods
show
signature(object="DAVIDCluster")
:
basic console output. summary
signature(object="DAVIDCluster")
:
basic summary console output. initialize
signature(object="DAVIDCluster",
fileName="character")
: basic cluster report file
parser. cluster
signature(object="DAVIDCluster")
:
getter for the corresponding slot. enrichment
signature(object="DAVIDCluster")
:
obtain the enrichment score of each cluster. members
signature(object="DAVIDCluster")
:
obtain the corresponding cluster members.
References
- The Database for Annotation,
Visualization and Integrated Discovery
(david.abcc.ncifcrf.gov)
- Huang, D. W.; Sherman, B.
T.; Tan, Q.; Kir, J.; Liu, D.; Bryant, D.; Guo, Y.;
Stephens, R.; Baseler, M. W.; Lane, H. C.; Lempicki, R.
A. DAVID Bioinformatics Resources: expanded annotation
database and novel algorithms to better extract biology
from large gene lists. Nucleic Acids Res, Laboratory of
Immunopathogenesis and Bioinformatics, SAIC-Frederick,
Inc., National Cancer Institute at Frederick, MD 21702,
USA., 2007, 35, W169-W175
See Also
Other DAVIDCluster: cluster
,
cluster
, dictionary
,
dictionary
, enrichment
,
enrichment
, members
,
members
, membership
,
membership
, subset
,
subset
, summary
,
summary
, summary
,
summary