From 6e0363dc22871554c6db21f8b47fc3181a588c76 Mon Sep 17 00:00:00 2001 From: sdgamboa Date: Tue, 12 Mar 2024 11:29:19 -0400 Subject: [PATCH] Update "get started" vignette. Minor fixes. --- vignettes/bugphyzz.Rmd | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/vignettes/bugphyzz.Rmd b/vignettes/bugphyzz.Rmd index a63f8689..6842ab9d 100644 --- a/vignettes/bugphyzz.Rmd +++ b/vignettes/bugphyzz.Rmd @@ -85,7 +85,7 @@ Metadata associated with the attribute values: on the curator’s knowledge or results of ASR or IBD. * Validation. Score of the [10-fold cross-validation analysis](https://github.com/waldronlab/taxPProValidation). Matthews correlation coefficient (MCC) for discrete attributes and - R-squared for numeric attributes. Default values is 0.5 and above. + R-squared for numeric attributes. Default threshold value is 0.5 and above. * NSTI. Nearest sequence taxon index as described in [PICRUSt](https://doi.org/10.1038/nbt.2676) or the [castor](https://cran.r-project.org/web/packages/castor/index.html) package. @@ -97,7 +97,7 @@ Metadata associated with the attribute values: value of a source based on three criteria: 1) it has a source, 2) it has valid references, and 3) the curation was peer-reviewed. Valid options: high, medium, or low, used when a source satisfied three, two, -or one or less of these criteria. +or one of these criteria. **More information** @@ -161,7 +161,7 @@ glimpse(bp$aerophilicity, width = 50) Compare the column names with the data schema described above. -## Creating signatures +## Create signatures After the attributes have been imported, we can use the `makeSignatures` function to create a list of signatures. `makeSignatures` accepts a few