yiluheihei microbiomeMarker issues

yiluheihei / microbiomeMarker

R package for microbiome biomarker discovery

https://yiluheihei.github.io/microbiomeMarker

GNU General Public License v3.0

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issues

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plot_claudogram() takes forever to complete

#119 bahyirou opened 1 week ago
0
run_aldex enrich_group source code question

#118 possumhound opened 1 month ago
0
Error in `purrr::map2_lgl()`: ! Can't recycle `.x` (size 45) to match `.y` (size 0).

#117 thngkaixian opened 1 month ago
0
Error when trying to write as a CSV the marker_table

#116 mdtorohernando opened 3 months ago
1
CLR Normalization does not automatically handle zero values

#115 qqwxp opened 4 months ago
0
Error when running run_aldex with kruskal or glm_anova for more than 2 level comparisons

#114 LauGuaUuu opened 5 months ago
5
error in plot_cladogram function "TRUE/FALSE needed"

#113 drelo closed 3 months ago
1
microbiomeMarker installation

#112 fabio-marcelo opened 7 months ago
0
lefse analysis error

#111 KOMALSKK opened 7 months ago
0
Multiple errors when following tutorial using my own dataset

#110 lingvv opened 7 months ago
0
function or argument to subset taxa for plot_cladogram

#109 ethanbass opened 8 months ago
1
When run run_lefse, get different results at species level using taxa_rank default and taxa_rank="species" seperatly

#108 LAmethyst opened 9 months ago
0
error with run_lefse with 1 group and one subgroup: Error in `purrr::map2_lgl()`: i In index: 1

#107 nadiaandreani opened 9 months ago
0
otu_table from run_lefse differs from otu_table from phyloseq

#106 vdijckthomas closed 11 months ago
1
DESeq2

#105 BlueK77 opened 11 months ago
1
is there a way to calculate AUC confidence interval while running run_sl

#104 nbutyrate opened 11 months ago
0
a

#103 cafferychen777 opened 11 months ago
0
suggestion: PINA and TINA

#102 Luponsky opened 1 year ago
0
Error in check_rank_names(ps) : ranks of taxonimic profile must be one of Kingdom, Phylum, Class, Order, Family, Genus, Species

#101 KatrinaLutap opened 1 year ago
3
how to interpret the result of plot_abundance

#100 linux51 opened 1 year ago
0
problems importing qiime2 files

#99 mdtorohernando opened 1 year ago
1
Heatmap of microbiomeMarker object

#98 cpavloud opened 1 year ago
0
No marker identified using run_ancombc() example

#97 fconstancias opened 1 year ago
1
Error in run_test_multiple_groups function

#96 W-xyue opened 1 year ago
0
The results of conda lefse and R run_lefse are different.

#95 LeeJH5120 opened 1 year ago
1
after run_lefse, plot_cladogram error

#94 LeeJH5120 opened 1 year ago
4
Applying the run_lefse command.

#93 ricmedveterinario opened 1 year ago
3
import picrust2 failed: "cannot open compressed file"

#92 azahorik opened 1 year ago
1
trying to normalize the microbial abundance data for beta diversity

#91 libradaatencio opened 1 year ago
0
How to choose markers identified by different methods

#90 DrYoungOG opened 1 year ago
0
plot_ef_bar() legend

#89 KitHubb opened 1 year ago
0
import the picrust output

#88 najibveto opened 1 year ago
0
Error in seq_len(nrow(lefse_out)) : argument must be coercible to non-negative integer

#87 marwa38 opened 1 year ago
1
lefse for pairwise testing while having more than 2 groups?

#86 marwa38 opened 1 year ago
0
ANCOM_BC2 error: duplicate 'row.names' are not allowed

#85 oguienko opened 1 year ago
0
plot_ef_bar() left and right sided bars

#84 mawa86 opened 1 year ago
1
Error in compare_DA: Component taxa/OTU names do not match.

#83 kstagaman opened 1 year ago
0
run_lefse and missing data handling

#82 mawa86 opened 2 years ago
0
about function "run_test_tow_groups"

#81 work-liuyang opened 2 years ago
0
picrust2_import with system.file

#80 Lacona opened 2 years ago
0
From phyloseq-object to microbiomemarker-class-object

#79 mariamaseng closed 2 years ago
1
how to run_lefse with subgroups and graphing them with plot_ef_bar???

#78 freixas84 opened 2 years ago
0
issues installing from bioconductor

#77 mawa86 closed 2 years ago
4
the script doesn't return any output

#76 madbullahi opened 2 years ago
1
error in import_qiime2()

#75 DrYoungOG opened 2 years ago
1
Random effect syntax e.g. using `run_ancom`

#74 fconstancias opened 2 years ago
3
Plot_ef_bar() returns error for run_aldex() results

#73 marcinschmidt opened 2 years ago
4
Allow giving a physeq object with an ASV column

#72 SgtVil closed 2 years ago
6
Why same LEfSe object gives different taxa in Cladogram and LDA BarPlot?

#71 borexino closed 2 years ago
1
contrast for multiple groups (edgeR)

#70 ignadb closed 2 years ago
1