diff --git a/.zenodo.json b/.zenodo.json new file mode 100644 index 0000000..04f3b23 --- /dev/null +++ b/.zenodo.json @@ -0,0 +1,30 @@ +{ + "creators": [ + { + "orcid": "0000-0003-2725-0694", + "affiliation": "CUNY Graduate School of Public Health and Health Policy", + "name": "Waldron, Levi" + }, + { + "orcid": "0000-0002-6863-7943", + "affiliation": "CUNY Graduate School of Public Health and Health Policy", + "name": "Gamboa, Samuel" + }, + { + "orcid": "", + "affiliation": "", + "name": "Wokaty, Jennifer" + ], + + "license": [ + { + "title" : "Creative Commons Attribution 4.0 International", + "string" : "cc-by-4.0", + "url" : "https://creativecommons.org/licenses/by/4.0/" + } + ], + + "title": "Bugphyzz: A harmonized data resource and software for enrichment analysis of microbial physiologies", + + "keywords": ["microbe signatures", "bacterial annotations", "microbe set enrichment analysis"] +} diff --git a/DESCRIPTION b/DESCRIPTION index 6cfaa7a..26b725a 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -26,7 +26,7 @@ Authors@R: Description: Create text files in CSV and GMT formats for bugphyzz License: Artistic-2.0 Encoding: UTF-8 -RoxygenNote: 7.2.3 +RoxygenNote: 7.3.1 Remotes: sdgamboa/taxPPro, waldronlab/bugphyzz, diff --git a/man/dot-hasSpecialThreshold.Rd b/man/dot-hasSpecialThreshold.Rd new file mode 100644 index 0000000..f6a963a --- /dev/null +++ b/man/dot-hasSpecialThreshold.Rd @@ -0,0 +1,22 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/bugphyzzExports.R +\name{.hasSpecialThreshold} +\alias{.hasSpecialThreshold} +\title{Returns if a physiology has manually curated thresholds} +\usage{ +.hasSpecialThreshold(physiology) +} +\arguments{ +\item{physiology}{the name of a physiology} +} +\value{ +boolean +} +\description{ +Returns if a physiology has manually curated thresholds +} +\examples{ +names(THRESHOLDS()) +bugphyzzExports:::.hasSpecialThreshold(physiology = "coding genes") +bugphyzzExports:::.hasSpecialThreshold(physiology = "aerophilicity") +}