NEWS.md

In waldronlab/bugsigdbr: R-side access to published microbial signatures from BugSigDB

bugsigdbr

Changes in version 1.13.6

• Add domain support for signatures

Changes in version 1.13.2

• Update functions to accommodate PMID as Study ID

Changes in version 1.11.4

• Update stable release version for data on Zenodo

Changes in version 1.8.2

• Uniform first-letter capitalization for Body site and Condition terms

Changes in version 1.2.0

• importBugSigDB accepts Zenodo DOIs and Github hashes to obtain defined data releases or devel to obtain the latest version (new argument version).
• Ontology-based queries for experimental factors and body sites (new functions getOntology and subsetByOntologies)
• Compilation of meta-signatures from individual signatures for one body site and one condition at a time, weighted by sample size (new function getMetaSignatures)

Version 1.0.0

• released in Bioconductor 3.14!

New features

• importBugSigDB: Obtain published microbial signatures from bugsigdb.org
• getSignatures: Obtain microbe signatures from BugSigDB
• restrictTaxLevel: Restrict microbe signatures to specific taxonomic levels
• extractTaxLevel: Extract specific taxonomic levels from a microbe signature
• writeGMT: Write microbe signatures to file in GMT format
• browseSignature: Displaying BugSigDB signatures pages in a web browser
• browseTaxon: Displaying BugSigDB taxon pages in a web browser

waldronlab/bugsigdbr documentation built on June 1, 2025, 11:15 p.m.