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dnapath
View on CRAN: Click
here
Download and install dnapath package within the R console
Install from CRAN:
install.packages("dnapath")
Install from Github:
library("remotes")
install_github("cran/dnapath")
Install by package version:
library("remotes")
install_version("dnapath", "0.7.4")
Attach the package and use:
library("dnapath")
Maintained by
Tyler Grimes
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-06-25
Latest Update: 2022-05-09
Description:
Integrates pathway information into the differential network analysis of two gene expression datasets as described in Grimes, Potter, and Datta (2019) . Provides summary functions to break down the results at the pathway, gene, or individual connection level. The differential networks for each pathway of interest can be plotted, and the visualization will highlight any differentially expressed genes and all of the gene-gene associations that are significantly differentially connected.
How to cite:
Tyler Grimes (2020). dnapath: Differential Network Analysis using Gene Pathways. R package version 0.7.4, https://cran.r-project.org/web/packages/dnapath
Previous versions and publish date:
Other packages that cited dnapath R package
View dnapath citation profile
Other R packages that dnapath depends,
imports, suggests or enhances
Functions, R codes and Examples using
the dnapath R package
Some associated functions: biomart_hsapiens . c.dnapath . c.dnapath_list . combine_overlapping_pathways . d_edgesC . d_genesC . d_pathwayC . dna_pathway . dnapath . dnapath2-package . entrez_to_symbol . filter_pathways . format_species_name . get_biomart_mapping . get_genes . get_mean_expr_mat . get_min_alpha . get_networks . get_reactome_pathways . head.dnapath_list . init_mart . length.dnapath_list . meso . names.dnapath . names.dnapath_list . p53_pathways . plot.dnapath . plot_pair . print.dnapath . print.dnapath_list . rename_genes . rev.dnapath_list . run_aracne . run_bc3net . run_c3net . run_clr . run_corr . run_dwlasso . run_genie3 . run_glasso . run_mrnet . run_pcor . run_pcor_fdr . run_silencer . sort.dnapath_list . sub-.dnapath . sub-.dnapath_list . sub-sub-.dnapath . sub-sub-.dnapath_list . subset-.dnapath . subset-.dnapath_list . subset.dnapath_list . summarize_edges . summarize_genes . summarize_genes_for_pathway . summarize_pathways . summary.dnapath . summary.dnapath_list . symbol_to_entrez . tail.dnapath_list .
Some associated R codes: RcppExports.R . data.R . dna.R . imports.R . methods.R . plot.R . reactome.R . summary.R . Full dnapath package functions and examples
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