rmvSpliceVariant: Remove splicing variants from the database.

In BiGGR: Constraint based modeling in R using metabolic reconstruction databases

Description

Removes alternative splicing information from the database.

Usage

rmvSpliceVariant(gene.info)

Arguments

gene.info

A reaction gene maping from the ReconX database created from functions extractGeneAssociations

Value

A n x 2 dimentional dataframe of Reaction-Gene(Entrez number) mapping from ReconX database

Author(s)

Anand Gavai <[e-mail]>, Hannes Hettling

References

Thiele, I. et al. Nat Biotech, 2013

Examples

data(Recon2)
gene.info <- extractGeneAssociations(Recon2)

gene.info<-do.call(rbind.data.frame,gene.info)
colnames(gene.info)<-c("GPR")
gene.info$react_id<-row.names(gene.info)
gene.info<-gene.info[,c(2,1)]
rownames(gene.info)<-NULL

react_gene_map<-rmvSpliceVariant(gene.info)

BiGGR documentation built on Nov. 8, 2020, 5:38 p.m.