Remove .DS_Store files and update gitignore

.Rbuildignore

@@ -11,4 +11,10 @@
 ^_pkgdown\.yml$
 ^docs$
 ^pkgdown$
+^LICENSE\.md$
+^cran-comments\.md$
+^CRAN-RELEASE$
+^revdep$
+^\.travis\.yml$
+^codecov\.yml$
 

.gitignore

@@ -3,3 +3,8 @@
 .RData
 .Ruserdata
 MicrobiomeStat.Rproj
+.DS_Store
+inst/doc
+/doc/
+/Meta/
+docs/

R/generate_beta_change_test_pair.R

@@ -169,7 +169,7 @@ generate_beta_change_test_pair <-
 
       # Create formula for linear model
       formula <-
-        as.formula(paste0("distance", "~", paste(c(
+        stats::as.formula(paste0("distance", "~", paste(c(
           time_varying_info$time_varying_vars, group.var
         ), collapse = "+")))
 
@@ -225,4 +225,4 @@ generate_beta_change_test_pair <-
 
     return(test.list)
 
-  }
+  }

README.md

@@ -29,6 +29,13 @@ their extensive biological inquiries over time, with a spirit of
 gratitude towards the community’s existing resources and a collaborative
 ethos for furthering microbiome research.
 
+<figure>
+<img
+src="https://repobeats.axiom.co/api/embed/6466765a763c06a17b91f0a2d456855888d71573.svg"
+title="Repobeats analytics image" alt="Alt" />
+<figcaption aria-hidden="true">Alt</figcaption>
+</figure>
+
 # News
 
 📢 **Update** (January 8th): Enhancement in Color Palette Functionality

inst/extdata/sample-metadata.tsv

@@ -0,0 +1,36 @@
+sample-id	barcode-sequence	body-site	year	month	day	subject	reported-antibiotic-usage	days-since-experiment-start
+#q2:types	categorical	categorical	numeric	numeric	numeric	categorical	categorical	numeric
+L1S8	AGCTGACTAGTC	gut	2008	10	28	subject-1	Yes	0
+L1S57	ACACACTATGGC	gut	2009	1	20	subject-1	No	84
+L1S76	ACTACGTGTGGT	gut	2009	2	17	subject-1	No	112
+L1S105	AGTGCGATGCGT	gut	2009	3	17	subject-1	No	140
+L2S155	ACGATGCGACCA	left palm	2009	1	20	subject-1	No	84
+L2S175	AGCTATCCACGA	left palm	2009	2	17	subject-1	No	112
+L2S204	ATGCAGCTCAGT	left palm	2009	3	17	subject-1	No	140
+L2S222	CACGTGACATGT	left palm	2009	4	14	subject-1	No	168
+L3S242	ACAGTTGCGCGA	right palm	2008	10	28	subject-1	Yes	0
+L3S294	CACGACAGGCTA	right palm	2009	1	20	subject-1	No	84
+L3S313	AGTGTCACGGTG	right palm	2009	2	17	subject-1	No	112
+L3S341	CAAGTGAGAGAG	right palm	2009	3	17	subject-1	No	140
+L3S360	CATCGTATCAAC	right palm	2009	4	14	subject-1	No	168
+L5S104	CAGTGTCAGGAC	tongue	2008	10	28	subject-1	Yes	0
+L5S155	ATCTTAGACTGC	tongue	2009	1	20	subject-1	No	84
+L5S174	CAGACATTGCGT	tongue	2009	2	17	subject-1	No	112
+L5S203	CGATGCACCAGA	tongue	2009	3	17	subject-1	No	140
+L5S222	CTAGAGACTCTT	tongue	2009	4	14	subject-1	No	168
+L1S140	ATGGCAGCTCTA	gut	2008	10	28	subject-2	Yes	0
+L1S208	CTGAGATACGCG	gut	2009	1	20	subject-2	No	84
+L1S257	CCGACTGAGATG	gut	2009	3	17	subject-2	No	140
+L1S281	CCTCTCGTGATC	gut	2009	4	14	subject-2	No	168
+L2S240	CATATCGCAGTT	left palm	2008	10	28	subject-2	Yes	0
+L2S309	CGTGCATTATCA	left palm	2009	1	20	subject-2	No	84
+L2S357	CTAACGCAGTCA	left palm	2009	3	17	subject-2	No	140
+L2S382	CTCAATGACTCA	left palm	2009	4	14	subject-2	No	168
+L3S378	ATCGATCTGTGG	right palm	2008	10	28	subject-2	Yes	0
+L4S63	CTCGTGGAGTAG	right palm	2009	1	20	subject-2	No	84
+L4S112	GCGTTACACACA	right palm	2009	3	17	subject-2	No	140
+L4S137	GAACTGTATCTC	right palm	2009	4	14	subject-2	No	168
+L5S240	CTGGACTCATAG	tongue	2008	10	28	subject-2	Yes	0
+L6S20	GAGGCTCATCAT	tongue	2009	1	20	subject-2	No	84
+L6S68	GATACGTCCTGA	tongue	2009	3	17	subject-2	No	140
+L6S93	GATTAGCACTCT	tongue	2009	4	14	subject-2	No	168