Dongyan Shao

Sorry，But I ggmsa picture is grey！

17

The picture is grey，I show 6000+bp sequence，but it‘s grey . How can I solve them? ggmsa is a excellent R package! [111w.pdf](https://github.com/YuLab-SMU/ggmsa/files/5728358/111w.pdf)

Orthofinder skip the alignment

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OrthoFinder version 2.5.4 Copyright (C) 2014 David Emms 2022-04-07 09:18:23 : Starting OrthoFinder 2.5.4 24 thread(s) for highly parallel tasks (BLAST searches etc.) 1 thread(s) for OrthoFinder algorithm Checking required...

I meet the problem with mmseqs database GTDB

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## Expected Behavior I met problem with mmseqs database GTDB .The problem in mmseqs tar2db gtdb.tar.gz tardb --tar-include 'faa$'. It can't work in "faa$" paramater. But if i delete "$"...

Unrecognized character found in trait file

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Command: /opt/anaconda3/envs/scoary/bin/scoary -g gene_presence_absence_roary.csv -t Hostgroup_membership.csv -p 1 -c BH --no_pairwise Performing no pairwise comparisons. Ignoring all tree related options (user tree, population aware-correction, permutations). Reading gene presence absence file...

fc.method = "compare_mean" can run but fc.method = "compare_median" can't run

7

mpse1 %>% mp_cal_abundance(.abundance=Abundance, force=TRUE, relative=FALSE) %>% mp_diff_analysis(.abundance=Abundance, force=TRUE, relative=FALSE, .group=group, filter.p="pvalue",p.adjust = "BH",fc.method = "compare_median") can't run . mpse1 %>% + mp_cal_abundance(.abundance=Abundance, force=TRUE, relative=FALSE) %>% + mp_diff_analysis(.abundance=Abundance, force=TRUE, relative=FALSE, .group=group,...

can't calculate metaphlan's output

6

when i do mpse3