Package: insectDisease 1.2.3

Tad Dallas

insectDisease: Ecological Database of the World's Insect Pathogens

David Onstad provided us with this insect disease database, sometimes referred to as the 'Ecological Database of the Worlds Insect Pathogens' or EDWIP. Files have been converted from 'SQL' to csv, and ported into 'R' for easy exploration and analysis. Thanks to the Macroecology of Infectious Disease Research Coordination Network (RCN) for funding and support. Data are also served online in a static format at <https://edwip.ecology.uga.edu/>.

Authors:Tad Dallas [aut, cre]

insectDisease_1.2.3.tar.gz
insectDisease_1.2.3.zip(r-4.7)insectDisease_1.2.3.zip(r-4.6)insectDisease_1.2.3.zip(r-4.5)
insectDisease_1.2.3.tgz(r-4.6-any)insectDisease_1.2.3.tgz(r-4.5-any)
insectDisease_1.2.3.tar.gz(r-4.7-any)insectDisease_1.2.3.tar.gz(r-4.6-any)
insectDisease_1.2.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
insectDisease/json (API)

# Install 'insectDisease' in R:

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

Bug tracker:https://github.com/viralemergence/insectdisease/issues

Datasets:

assocref - Insect host-parasite interactions
citation - Citation information for a subset of host-pathogen interactions
hosts - Detailed information on insect host species
hostTaxonomy - Cached version of host taxonomy
negative - Information on negative host-parasite interactions
nemaref - Citation information for host-nematode interactions
nematode - Information on nematode parasite occurrences
new_asso - New_asso
newnema - New_asso
noassref - Noassref
nvpassoc - Information on non-viral pathogens of insect hosts
pathogen - Information on pathogen species in the database
pathTaxonomy - Cached version of pathogen taxonomy
viraref - Citation information for host-virus interactions
viruses - Information on viral pathogen occurrences

On CRAN:

software

4.15 score 14 stars 3 scripts 20 downloads 1 exports 58 dependencies

Last updated from:35c126cda8. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	153
source / vignettes	OK	232
linux-release-x86_64	OK	142
macos-release-arm64	OK	163
macos-oldrel-arm64	OK	267
windows-devel	OK	123
windows-release	OK	99
windows-oldrel	OK	96
wasm-release	OK	165

Exports:getNCBI

Dependencies:ape askpass cli cpp11 crayon crul curl data.table digest dplyr fastmatch generics glue hms httpcode httr igraph jsonlite lattice lifecycle magrittr Matrix mime natserv nlme openssl phangorn pillar pkgconfig plyr prettyunits progress quadprog R6 Rcpp rentrez ritis rlang rncl rotl rredlist solrium stringi sys taxize tibble tidyselect triebeard urltools utf8 vctrs WikipediR wikitaxa withr worrms XML xml2 zoo

Exploring the Ecological Database of World's Insect Pathogens

load required packages for vignette | Loading the data | Visualizing the data

Rendered fromdataManip.Rmdusingknitr::rmarkdown

Last update: 2022-08-23
Started: 2020-11-18

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Insect host-parasite interactions	assocref
Citation information for a subset of host-pathogen interactions	citation
Get NCBI taxonomy data	getNCBI
Detailed information on insect host species	hosts
Cached version of host taxonomy (see vignette for code to build from scratch)	hostTaxonomy
InsectDisease.	insectDisease-package InsectDisease _PACKAGE
Information on negative host-parasite interactions	negative
Citation information for host-nematode interactions	nemaref
Information on nematode parasite occurrences	nematode
new_asso	newnema new_asso
noassref	noassref
Information on non-viral pathogens of insect hosts	nvpassoc
Information on pathogen species in the database	pathogen
Cached version of pathogen taxonomy (see vignette for code to build from scratch)	pathTaxonomy
Citation information for host-virus interactions	viraref
Information on viral pathogen occurrences	viruses