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

Exploring Epigenomic Datasets by ChIPseeker

Qianwen Wang, Ming Li, Tianzhi Wu, +8

Current Protocols

EngineeringGeneticsData PreparationEpigenomic DatasetsGenomics +25

Use ggbreak to Effectively Utilize Plotting Space to Deal With Large Datasets and Outliers

Shuangbin Xu, Meijun Chen, Tingze Feng, +3

Frontiers in Genetics

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

Gut microbiota and metabolite alterations associated with reduced bone mineral density or bone metabolic indexes in postmenopausal osteoporosis

Jianquan He, Shuangbin Xu, Bangzhou Zhang, +8

Aging

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

Featured Gut Microbiomes Associated With the Progression of Chronic Hepatitis B Disease

Zhangran Chen, Yurou Xie, Fei Zhou, +10

Frontiers in Microbiology