Package: STRINGdb 2.17.3

Damian Szklarczyk

STRINGdb: STRINGdb - Protein-Protein Interaction Networks and Functional Enrichment Analysis

The STRINGdb package provides a R interface to the STRING protein-protein interactions database (https://string-db.org).

Authors:Andrea Franceschini <[email protected]>

STRINGdb_2.17.3.tar.gz
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STRINGdb_2.17.3.tgz(r-4.4-any)STRINGdb_2.17.3.tgz(r-4.3-any)
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STRINGdb.pdf |STRINGdb.html✨
STRINGdb/json (API)

# Install 'STRINGdb' in R:

install.packages('STRINGdb', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

diff_exp_example1 - Example of microarray data
interactions_example - Example of a protein-protein interactions sorted data frame

On BioConductor:STRINGdb-2.17.3(bioc 3.20)STRINGdb-2.16.4(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

6 exports 6.06 score 43 dependencies 9 dependents 82 mentions

Last updated 1 months agofrom:cabbea2f0a

Exports:delColDf downloadAbsentFile downloadAbsentFileSTRING multi_map_df renameColDf STRINGdb

Dependencies:askpass bit bit64 bitops blob cachem caTools chron cli cpp11 curl DBI fastmap glue gplots gsubfn gtools hash httr igraph jsonlite KernSmooth lattice lifecycle magrittr Matrix memoise mime openssl pkgconfig plogr plotrix plyr png proto R6 RColorBrewer Rcpp rlang RSQLite sqldf sys vctrs

STRINGdb Vignette

Rendered fromSTRINGdb.Rnwusingutils::Sweaveon Jul 02 2024.

Last update: 2024-05-31
Started: 2013-11-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
add_diff_exp_color	\S4method{add_diff_exp_color}{STRINGdb}
add_proteins_description	\S4method{add_proteins_description}{STRINGdb}
coeffOfvar	coeffOfvar
delColDf	delColDf
example of microarray data (data processed from GEO GSE9008)	diff_exp_example1
downloadAbsentFile	downloadAbsentFile
downloadAbsentFileSTRING	downloadAbsentFileSTRING
get_aliases	\S4method{get_aliases}{STRINGdb}
get_annotations	\S4method{get_annotations}{STRINGdb}
get_annotations_desc	\S4method{get_annotations_desc}{STRINGdb}
get_bioc_graph	\S4method{get_bioc_graph}{STRINGdb}
get_clusters	\S4method{get_clusters}{STRINGdb}
get_enrichment	\S4method{get_enrichment}{STRINGdb}
get_graph	\S4method{get_graph}{STRINGdb}
get_homologs_besthits	\S4method{get_homologs_besthits}{STRINGdb}
get_interactions	\S4method{get_interactions}{STRINGdb}
get_link	\S4method{get_link}{STRINGdb}
get_neighbors	\S4method{get_neighbors}{STRINGdb}
get_paralogs	\S4method{get_paralogs}{STRINGdb}
get_png	\S4method{get_png}{STRINGdb}
get_ppi_enrichment	\S4method{get_ppi_enrichment}{STRINGdb}
get_proteins	\S4method{get_proteins}{STRINGdb}
get_subnetwork	\S4method{get_subnetwork}{STRINGdb}
get_summary	\S4method{get_summary}{STRINGdb}
get_term_proteins	\S4method{get_term_proteins}{STRINGdb}
example of a protein-protein interactions sorted data frame	interactions_example
load	\S4method{load}{STRINGdb}
load_all	\S4method{load_all}{STRINGdb}
map	\S4method{map}{STRINGdb}
mp	\S4method{mp}{STRINGdb}
multi_map_df	multi_map_df
plot_network	\S4method{plot_network}{STRINGdb}
post_payload	\S4method{post_payload}{STRINGdb}
remove_homologous_interactions	\S4method{remove_homologous_interactions}{STRINGdb}
renameColDf	renameColDf
set_background	\S4method{set_background}{STRINGdb}
Class '"STRINGdb"'	STRINGdb STRINGdb-class