clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

Tianzhi Wu, Erqiang Hu, Shuangbin Xu, +11

The Innovation

Treeio: An R Package for Phylogenetic Tree Input and Output with Richly Annotated and Associated Data

Ligen Wang, Tommy Tsan‐Yuk Lam, Shuangbin Xu, +11

Molecular Biology and Evolution

Phylogenetic Tree InputGeneticsGenomicsRichly AnnotatedPhylogenetic Analysis +19

<i>Ggtree</i> : A serialized data object for visualization of a phylogenetic tree and annotation data

Shuangbin Xu, Lin Li, Xiao Luo, +7

iMeta

ggtreeExtra: Compact Visualization of Richly Annotated Phylogenetic Data

Shuangbin Xu, Zehan Dai, Pingfan Guo, +12

Molecular Biology and Evolution

MicrobiotaProcess: A comprehensive R package for deep mining microbiome

Shuangbin Xu, Li Zhan, Wenli Tang, +8

The Innovation

ggmsa: a visual exploration tool for multiple sequence alignment and associated data

Lang Zhou, Tingze Feng, Shuangbin Xu, +10

Briefings in Bioinformatics

GeneticsVisual Exploration ToolGenomicsSequence AlignmentR Package +18

Transcriptional Analyses of Mandarins Seriously Infected by ‘Candidatus Liberibacter asiaticus’

Meirong Xu, Ya Li, Zheng Zheng, +3

PLoS ONE

Microbial PathogensGeneticsHormone CrosstalkPlant PathologyGenomics +17

MicrobiotaProcess: A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

Shuangbin Xu, Li Zhan, Wenli Tang, +9

DysbiosisHuman Microbial FloraData StructureMicrobiome BiologyMicrobiota Function +18

Distinct Bottom-Water Bacterial Communities at Methane Seeps With Various Seepage Intensities in Haima, South China Sea

Xiaopeng Li, Zehan Dai, Pengfei Di, +5

Frontiers in Marine Science

BiologyMicrobial DiversityMethane ContentEngineeringMicrobial Systematics +13

Distribution pattern and titer of Candidatus Liberibacter asiaticus in periwinkle (Catharanthus roseus)

Ya Li, Meirong Xu, Zehan Dai, +1

Journal of Integrative Agriculture

BiologyPhysiological Plant PathologyPlant-pathogen InteractionEngineeringPlant-virus Interaction +12