gene.geneslist.sig: Compute 3 two-way table statistics and p-values, with 4...

In CoCiteStats: Different test statistics based on co-citation.

Description

This function calculates Concordance, Jaccard's index and Hubert's Γ with no adjustment, adjusting for paper size (PS), adjusting for gene size (GS) and both, to evaluate the significance of co-citation of a gene of interest and a gene list

Usage

gene.geneslist.sig(gene, geneslist, paperLens = paperLen(), n.resamp=100)

Arguments

gene	The Entrez Gene ID for the gene of interest.
geneslist	The list of Entrez Gene IDs for genes with which the co-citation of the gene of interest is to be evaluated.
paperLens	The sizes of the PubMed papers for consideration.
n.resamp	Number of resampling for generating empirical p-values.

Value

Statistics and resampling p-values for all 3 two-way tables along with the 4 adjustments for gene and geneslist based on n.resamp resamplings.

Author(s)

Beiying Ding

References

Testing Gene Associations Using Co-citation, by B. Ding and R. Gentleman. Bioconductor Technical Report, 2004

See Also

actorAdjTable, paperLen, twTStats, twowayTable

Examples

 
gene <- "705"
geneslist <- "7216"

gene.geneslist.sig(gene, geneslist, n.resamp=50)

CoCiteStats documentation built on Nov. 8, 2020, 6:55 p.m.