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cafferychen777
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ggpicrust2
Make Picrust2 Output Analysis and Visualization Easier
https://cafferychen777.github.io/ggpicrust2/
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@all-contributors please init
#52
cafferychen777
closed
10 months ago
0
compare_daa_results(): Maaslin2 method changed the names of the metacyc pathways, replacing a hyphen (-) with a dot (.)
#51
dgkurt
closed
8 months ago
5
pathway_errorbar(): "The 'group1' or 'group2' column in the 'daa_results_df' data frame contains more than one group. Please filter each to contain only one group."
#50
otaviolovison
closed
8 months ago
8
pathway_errorbar(): color was not mapped on the road when saving
#49
kestlermai
closed
10 months ago
4
Error: could not find function "memory.limit" Execution halted Warning in install.packages : installation of package 'ggpicrust2' had non-zero exit status
#48
XingChengguang
opened
10 months ago
1
Question: how to extract mapping data in `pathway_errorbar`
#47
Rainjie-afk
closed
11 months ago
2
My pred_metagenome_unstrat file has EC:1.1.1.1 and not KO format
#45
Aristotle1992
closed
8 months ago
8
pathway_errorbar(): Error: Index out of bounds
#44
UrielEspinoza
closed
8 months ago
11
pathway_errorbar(): Can't add `e2` to a <ggplot> object.
#42
Aristotle1992
closed
8 months ago
3
pathway_daa(): object 'p_values_df' not found"
#40
carmennns2
closed
8 months ago
15
Error in pathway_errorbar(abundance = metcyc_abundance_data %>% column_to_rownames("pathway"), : The feature with statistically significance is zero, pathway_errorbar can't do the visualization.
#39
mayagabitzsch
closed
8 months ago
1
pathway_pca(): Error in prcomp.default(t(abundance), center = TRUE, scale = TRUE) : cannot rescale a constant/zero column to unit variance
#38
mayagabitzsch
closed
1 year ago
3
ggpicrust2 installation dependency error
#37
xuan13hao
opened
1 year ago
4
Update README.md
#36
cafferychen777
closed
1 year ago
0
pathway_daa(): Error in metadata[, matching_columns]: ! Can't subset columns with matching_columns. ✖ Subscript matching_columnscan't contain missing values. ✖ It has a missing value at location 1. Runrlang::last_trace()
#35
mayagabitzsch
closed
12 months ago
7
pathway_errorbar(): `levels<-`(`*tmp*`, value = as.character(levels)) : factor level [3] is duplicated
#34
Lacona
closed
12 months ago
12
ko2kegg_abundance(): KO2Kegg abundance returning empty output.
#33
lcamVz
closed
8 months ago
3
finding KO's that contributed to KEGG pathway, KO_to_kegg=FALSE, and Implementing LEfSe
#32
kriegerm
closed
1 year ago
4
"FuncDiv" for functional diversity visualization using ggpicrust2?
#30
marwa38
closed
12 months ago
3
What is the statistical test applied by metagenomeSeq?
#29
Teo2091
closed
12 months ago
3
Questions about KEGG pathways
#28
andressamv
opened
1 year ago
1
Question: how to annotate pathway information using the output file from PICRUSt2?
#27
LiaOb21
closed
1 year ago
15
pathway_daa(): Error in contrasts<-(*tmp*, value = contr.funs[1 + isOF[nn]]) : contrasts can be applied only to factors with 2 or more levels
#26
andressamv
opened
1 year ago
6
Error after pathway_errorbar
#25
andressamv
closed
1 year ago
19
ggpicrust2(): Error in .rowNamesDF<-(x, value = value) : invalid 'row.names' length
#24
mbrose2022
closed
8 months ago
13
pathway_daa(): There are no statistically significant biomarkers
#23
GeoffreyOlweny
opened
1 year ago
4
pathway_annotation(): Error in $<-.data.frame(*tmp*, "pathway_description"
#22
kaw97
closed
1 year ago
9
pathway_heatmap not returning as expected
#21
hharder1
closed
8 months ago
13
pathway_errorbar(): "Error in guide_train.prism_offset_minor" when ggprism loaded
#20
erikpark
closed
1 year ago
3
pathway_annotation() long runtime, connecting to KEGG database
#19
erikpark
opened
1 year ago
6
pathway_errorbar(): Error: Index out of bounds
#18
RayKramp1
closed
1 year ago
4
pathway_annotation issue
#17
KitHubb
closed
1 year ago
5
pathway_annotation(): Error in curl::curl_fetch_memory(url, handle = handle) : Failure when receiving data from the peer
#16
ivanllampy
closed
1 year ago
2
pathway_annotation(): Error in `$<-.data.frame`(`*tmp*`, "pathway_description"......", : replacement has 3 rows, data has 1
#15
etorres475
closed
1 year ago
3
ggpicrust2(): Error in metadata_mat[, group] : subscript out of bounds
#14
yliu3089
closed
1 year ago
21
add a parameter to select top significant pathways
#13
lixiaopi1985
closed
1 year ago
3
ggpicrust2 no plot!
#12
luozhy88
closed
1 year ago
0
pathway_errorbar error in evaluating the argument 'physeq'
#11
luozhy88
closed
1 year ago
0
heat map issues
#10
RayKramp1
closed
1 year ago
1
A bug in the function pathway_errorbar()
#9
lixiaopi1985
closed
1 year ago
1
I end up with 0 obs. for my kegg_abundance
#8
RayKramp1
closed
1 year ago
28
loading issue
#7
RayKramp1
closed
1 year ago
0
error_ggpicrust2
#6
JAkorli
closed
1 year ago
30
Error in `ggplot_add()`
#5
luozhy88
closed
1 year ago
14
Error in curl::curl_fetch_memory
#4
luozhy88
closed
1 year ago
15
Tiny bug in ggpicrust2 function?
#3
schuettl
closed
1 year ago
3
ggpicrust2 installation issue - which R version should I use?
#2
gaworj
opened
1 year ago
11
Error in differential abundance analysis
#1
PrincessTiabeanie
closed
1 year ago
10
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