microeco

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Hi, Would be possible to show SampleIDs in the rarefaction curves plot? It seems from the available options that this might not be straightforward. Many thanks, jose something like this:...

jamorillo

tidy_taxonomy function do not properly perform tax_table clean up

4

Hello ChiLiubio, First of all, I would like to thank you for your amazing work in developing microeco package. It has been a relief for us, microbiologists without a solid...

BiggusDickus666

Error in method = cicrlize with plot_sum_links

8

Dear Chi Liu, I am getting an error when using this code for plot_sum_links for my data ( t1$plot_sum_links(method = "circlize", transparency = 0.2, annotationTrackHeight = circlize::mm_h(c(5, 5)))) My exact...

Christaline-George

Taxa assigned incorrectly to different groups in trans_func plots

3

Dear all, I did use the package for differential abundance test and to determine the indicator taxa using LEfSe method. I created LDA barplot and abundance plot. I noticed that...

MarwaElnaiem

unused argument error

1

Hello, I am using the last version of Microeco on RStudio version 2023.12.1 Build 402, on a Windows 10-equipped laptop with R version 4.3.2. When I try to plot an...

tenguzame

can you add method =" euclidean” of microtable$cal_betadiv?

1

Hi chi, I use trans_norm provides several data normalization. Then, I want to creat PCOA by use the "clr" microtable object. but it didn't work. I readed the microeco_tutorial. It...

milyzhou

Can't find function trans_ordination

3

Hello, I'm using microeco version 1.6.0 with R version 4.2.0 to do RDA and dbRDA analysis, but I get an error for trans_ordination: ` t1$trans_ordination(adjust_arrow_length = TRUE, max_perc_env = 1.5)...

Jgruetzke

R Session Aborted R encountered a fatal error The session was terminated

4

Hi Chi When I updated 'microeco' to V 1.6.0, I used the following code to plot the microbial network: t1

makerer5

FAPROTAX update

1

Hi, There is a 1.2.7 update for FAPROTAX, could you please consider update the prok_func_FAPROTAX.RData data? Thank you for your consideration. Best regards, Jack

jackqio

MEGAN output to microeco

1

I have a metatrascnriptomics dataset that I extracted from MEGAN. It is in a wide format and has taxonomic units in rows, and samples in columns. I could easily transform...

spe238