DAVIDdemo-annotationSummary: DAVID's website annotation summary example files

In RDAVIDWebService: An R Package for retrieving data from DAVID into R objects using Web Services API.

Description

These datasets correspond to the unfolded main summary categories data obtained in the Annotation Summary Results page in the Database for Annotation, Visualization and Integrated Discovery (DAVID) website, using as input file, the ones provided for demo purposes (demoList1 or demoList2) with default options. No statistical analysis is performed on these results.

Usage

  data(annotationSummary1)

  data(annotationSummary2)

Format

annotationSummary1/2 are data.frame for demoList1/2 input ids, respectively, with the following columns.

Main.Category

factor with the main categories used in the present analysis.

ID

integer to identify the annotation category.

Name

character with the name of category (the ones available in getAllAnnotationCategoryNames function).

X.

numeric with the percentage of the gene list ids present in the term.

Count

integer with the number of ids of the gene list that belong to this term.

Author(s)

Cristobal Fresno and Elmer A Fernandez

References

1. The Database for Annotation, Visualization and Integrated Discovery (davidgeneList.abcc.ncifcrf.gov)

2. 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

3. DAVID Help page http://david.abcc.ncifcrf.gov/helps/functional_annotation.html#summary

See Also

Other DataExamples: demoList1, demoList2, geneList1, geneList2

RDAVIDWebService documentation built on Nov. 8, 2020, 8:05 p.m.