metacoder

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as_phyloseq error

1

Hi Zachary, I have built a pipeline with the metacoder tutorials and it was all working fine for a very long time with different data inputs, but recently (2 weeks...

DanielSoutoV

Filter_taxa issue (No "taxon_id" column in the data set "3", so there are no taxon IDs)

1

Hello, Thank you for building this package! I'm running into a problem with the filter_taxa function. I want to plot my metadiversity tree up to order level, but i keep...

SimonMorvan

Color nodes according to correlation between relative abundance and external variables

5

Hi there, first of all, thanks for taxa and metacoder. These are extremely useful packages. I was wondering if it would be possible to color the nodes and edges of...

jpcasasruiz

R code to reproduce all figures

4

I wonder if the code to reproduce Fig 6 (geographic location data) and Fig 7 (gene ontology) in the manuscript is available. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5340466/ Data Availability Statement A manual with documentation...

haruosuz

Error in grid.Call.graphics(C_setviewport, vp, TRUE) : non-finite location and/or size for viewport

6

Hello, I have been receiving the following error message while running metacoder: "Error in grid.Call.graphics(C_setviewport, vp, TRUE) : non-finite location and/or size for viewport" The puzzling part with this is...

tboonf

```r library(metacoder) x

zachary-foster

```r library(metacoder) meta

zachary-foster

metacoder with MetagenomeSeq

5

Hi, I would like to use metacoder with the results from metagenomeSeq. Is that possible? I don't know where to look for comparisons (in metagenomeSeq). Do you have any idea...

acpaulo

Figure readability for publication?

1

Hello, I currently have a manuscript in revision with some heattree figures using metacoder - a reviewer has expressed concern about my tree being readable. Currently I have two high...

hbbshulman

compare_groups function gives multiple comparison per taxon per comparison

14

Hello, I have an issue with the `compare_groups` function. I want to create a heat tree matrix for which I use `compare_groups` on relative abundance counts created with `calc_obs_props`. But...

LChWu