From 0029c2bc241475f4bb4d173bf95612e4a1171a27 Mon Sep 17 00:00:00 2001
From: Danielle Callan <dcallan@upenn.edu>
Date: Wed, 26 Jun 2024 08:38:17 -0400
Subject: [PATCH] switch list of input types to numbered

---
 README.md               | 14 +++++++-------
 vignettes/user-data.Rmd | 14 +++++++-------
 2 files changed, 14 insertions(+), 14 deletions(-)

diff --git a/README.md b/README.md
index 38d63b2..af3e393 100644
--- a/README.md
+++ b/README.md
@@ -7,13 +7,13 @@
 
 A suite of R packages containing all of the data from MicrobiomeDB.org, and tools for analyzing and visualizing the same. It also supports
 importing data from the following formats:
-* TreeSummarizedExperiment
-* phyloseq
-* BIOM
-* QIIME2 output files
-* Mothur output files
-* dada2 output files
-* HUMAnN output files
+1. TreeSummarizedExperiment
+2. phyloseq
+3. BIOM
+4. QIIME2 output files
+5. Mothur output files
+6. dada2 output files
+7. HUMAnN output files
 
 If you have questions or comments of any kind, join us on our [Discord Community Server](https://discord.gg/DEjNbxgq)! We'd love to hear from you.
 
diff --git a/vignettes/user-data.Rmd b/vignettes/user-data.Rmd
index dd3c579..e3613eb 100644
--- a/vignettes/user-data.Rmd
+++ b/vignettes/user-data.Rmd
@@ -21,13 +21,13 @@ library(MicrobiomeDB)
 ## Importing Data {#introduction}
 
 The MicrobiomeDB package supports importing data from the following formats:
-* [TreeSummarizedExperiment](#treesummarizedexperiment)
-* [phyloseq](#phyloseq)
-* [BIOM](#biom)
-* [QIIME2 output files](#qiime2)
-* [Mothur output files](#mothur)
-* [dada2 output files](#dada2)
-* [HUMAnN output files](#humann)
+1. [TreeSummarizedExperiment](#treesummarizedexperiment)
+2. [phyloseq](#phyloseq)
+3. [BIOM](#biom)
+4. [QIIME2 output files](#qiime2)
+5. [Mothur output files](#mothur)
+6. [dada2 output files](#dada2)
+7. [HUMAnN output files](#humann)
 
 For formats other than `TreeSummarizedExperiment` the [mia](https://bioconductor.org/packages/mia) package is also required. You can install it like: