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david-barnett
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microViz
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
https://david-barnett.github.io/microViz/
GNU General Public License v3.0
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fix for cowplot get_legend warning issue with ggplot2 3.5
#171
david-barnett
closed
6 days ago
0
ps_filter by group?
#170
antoine4ucsd
opened
1 week ago
0
Better error message for UniFrac distances? - issue #53
#168
alejandrocs98
opened
1 week ago
2
comp_barplot reduce/remove space between axes and bars
#166
greboul
closed
3 weeks ago
1
0.12.3 ord_plot fixes
#165
david-barnett
closed
4 weeks ago
0
fix critical error in sampleAnnotation throwing package version checking error since R 4.4
#162
david-barnett
closed
1 month ago
0
Can I make a correlation heatmap between taxa and categorical variable?
#161
timz0605
closed
1 month ago
1
Use of custom transofmration in linear models.
#160
SilasK
opened
1 month ago
1
Labelling samples in ord_plot PCoA
#155
we32i225
closed
1 month ago
1
Tax_fix no non-unknown values
#153
luigallucci
closed
1 month ago
1
[FR] Add sankey/alluvial plots to visualize abundances
#152
camilogarciabotero
opened
2 months ago
2
tax.fix(), and "Problematic Genus values detected in tax_table"
#150
Nekovirus
closed
1 month ago
3
Strange behaviour when using comp_barplot with facet_grid
#149
DanaBlu
closed
2 months ago
2
Error in access(object, "otu_table", errorIfNULL) : otu_table slot is empty.
#148
chrstraub
opened
3 months ago
2
comp_barplot seem to have issues with domain being unknown
#147
NeginValizadegan
closed
1 month ago
2
cor_heatmap taxon_renamer or alternative option for labeling rows
#146
AngelicaMiraples
closed
1 month ago
3
Taxa cannot be aggregated at rank: Genus
#145
bylam
closed
1 month ago
2
Annotated heatmaps - error in sample_anno
#144
gaworj
closed
3 months ago
4
phylogenetic tree disappeared after tax_transform() step
#143
Leran10
closed
1 month ago
2
dominant taxa in each sample
#141
momodiame21
closed
1 month ago
2
Cannot build PCoA plot using ord_plot
#140
LauGuaUuu
closed
1 month ago
2
how can i order my samples and show their names?
#139
we32i225
closed
5 months ago
3
Logical variable becomes numeric when plotting CCA
#137
hkaspersen
closed
5 months ago
2
corncob no longer exports ibd_phylo, so now microViz does
#136
david-barnett
closed
5 months ago
1
0.12.0
#134
david-barnett
closed
6 months ago
1
get corncob from github remote
#133
david-barnett
closed
6 months ago
0
some GUSTAME site links have changed
#132
david-barnett
closed
6 months ago
1
comp_barplot of raw abundances
#131
moyn413
closed
6 months ago
2
Correlation heat map issue assigning taxonomic rank
#130
jspychalla
closed
6 months ago
5
interactive site inactive
#129
skose82
closed
6 months ago
2
The `tax_filter` argument `min_sample_abundance` does not recognise proportions
#128
hkaspersen
opened
8 months ago
2
Documentation for taxatrees
#127
hkaspersen
opened
9 months ago
1
Adding p values to cor_heatmap
#126
mradz19
closed
6 months ago
1
taxatree_models trans arg
#122
david-barnett
closed
11 months ago
1
fix #119 and bump version to 0.10.11
#121
david-barnett
closed
11 months ago
0
error in taxatree_stats_p_adjust when using grouping = c("rank","term")
#119
SilasK
closed
11 months ago
1
Support for TreeSummarizedExperiment?
#117
antagomir
closed
11 months ago
2
Sample Names for Heatmaps
#115
Drob84761
closed
1 year ago
1
fix: fixed erroneous taxon ordering that occurred if comp_barplot tax_level is set to "Taxon"
#114
david-barnett
closed
1 year ago
1
0.10.9
#113
david-barnett
closed
1 year ago
1
Example ordination plot workflow could be improved/simplified - currently shows 10% prevalence filtering of genera before CLR transform on families..
#112
david-barnett
closed
6 months ago
1
0.10.8 bug fix
#110
david-barnett
closed
1 year ago
0
Error: if (any(test_matrix < 1 & test_matrix != 0)) {: missing value where TRUE/FALSE needed
#109
david-barnett
closed
1 year ago
1
mixed effect in dist_permanova
#106
jorondo1
closed
1 year ago
0
Subsetting aitchison distance
#105
jorondo1
closed
1 year ago
0
Output from taxatree_models not matching corncob::differentialTest()
#104
wilhelmsjoland
closed
1 year ago
0
No change in #/Taxa when trying tax_select?
#102
david-barnett
closed
1 year ago
5
let tax_select actually use a list for tax list
#100
david-barnett
closed
1 year ago
1
tax_select using a list for input?
#99
carmennns2
closed
1 year ago
2
Calculating gunifrac on the fly in ord_explore gives no indication that it is working
#98
david-barnett
opened
1 year ago
0
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