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Visualization
BarBoxComutationDotForestHeatmapHistogramLollipopMafsummaryMaftitvManhattanOncoprintPM-AdiversityPM-comp-corPM-comp-funcPM-comp-taxaPM-DistributionPM-HclusterPM-HeatmapPM-Marker-CorrPM-Marker-RFscorePM-Marker-TestPM-NetworkPM-PcaPM-PcoaPM-plot-taxaQ-QSurvivalUpsetVenn
Sequence alignment
BLASTDotmatcherDotpathDottupNeedlePM-BdiversityPM-extract-rnaPM-parallel-metaPolydotWater
RNA Expression
Bulk RNA-seq Data AnalysisCancer Alternative Splicing AnalysisCCLHunterCIRI-deepCIRI3Cross-disease analysisDisease predictionEditing site annotationEditing site identificationEditingFactorDetectorFunGenGene-disease network constructionNCSelPredRNA-seq AnalysisSingle-cell RNA-seq Data AnalysisSPIRALTIVar diffTIVar predictVisualization of scRNA-seq Data Analysis Results
Variome analysis
BarcodeBLASTBarcodeFindereasyGWASExpPatternGeneFinderHaplotype analysisHapMapHapSnapLeadSNPFinderRice Varieties IdentificationRice Yield EstimationSeqFetchVersionMapWheat Head Estimation
Epigenome analysis
Age PredictorBS-RNAComparative analysis in nucleosomesDMR AnnotationDMR ToolkitEnrichment & AnnotationEnrichment analysis in nucleosome occupancyEWAS Network VisualizationGMQNIDMPLollipop PlotterMRAS
Long non-coding RNA
ClassificationFunctional PredictionID conversionLGClncbook-BLASTLncBot
Virus
COVID-19 genome variation annotationCOVID-19 haplotype analysisDenovo AssemblyEvolutionary treeFastq-to-VariantsGenealogy and Evolutionary AnalysisGenome AnnotationGenome TracingMcANMonkeypox virus genome variation annotationMonkeypox virus genome variation identificationPangolin COVID-19 Lineage AssignerSeqQCVENASVISTA
Single-cell omics
BroCOLICell Type ComparatorCell Type PredictorFGOTGOTSCSESSpaMITACOSUCASpatial
Image Processing
Image CroppingImage DenoisingImage FlippingImage PartitioningImage Resizing
Others
APAcatcherComposition analysisCross-model analysisCross-species analysisCross-stages analysisHomolog FinderLUTLSRSMIAncRNA-eQTLPM-predict-func
User Manual
Visualization
BarBoxComutationDotForestHeatmapHistogramLollipopMafsummaryMaftitvManhattanOncoprintPM-AdiversityPM-comp-corPM-comp-funcPM-comp-taxaPM-DistributionPM-HclusterPM-HeatmapPM-Marker-CorrPM-Marker-RFscorePM-Marker-TestPM-NetworkPM-PcaPM-PcoaPM-plot-taxaQ-QSurvivalUpsetVenn
Home
Visualization
Bar
Draw a bar plot for the given dataset
Box
Draw a box plot for the given dataset
Comutation
Draw a comutation plot for the given dataset
Dot
Draw a dot plot for the given dataset
Forest
Draw a forest plot for the given dataset
Heatmap
Draw a heatmap for the given dataset
Histogram
Draw a histogram for the given dataset
Lollipop
Draw a lollipop for the given dataset
Mafsummary
Draw a MAF summary for the given dataset
Maftitv
Draw a MAF titv for the given dataset
Manhattan
This program produces a manhattan plot given a snp file and other settings.
Oncoprint
Draw a oncoprint for the given dataset
PM-Adiversity
Alpha diversity index calculation and plotting
PM-comp-cor
Computing feature correlation coefficients and constructing co-occurrence networks.
PM-comp-func
Computing functional distances between samples and visualizing through heatmaps and cluster analysis.
PM-comp-taxa
Computing Meta-Storms distances between samples and visualizing through heatmaps and cluster analysis.
PM-Distribution
Plot relative abundance bar graph
PM-Hcluster
Hierarchical clustering by distance matrix
PM-Heatmap
Draw distance matrix heatmap
PM-Marker-Corr
Candidate biomarker selection by regression
PM-Marker-RFscore
Ranking biomarkers by random forest importance scoring
PM-Marker-Test
Candidate biomarker selection by rank sum test
PM-Network
Co-occurrence network mapping using correlations among community members
PM-Pca
Perform principal component analysis (PCA) and plot
PM-Pcoa
Perform principal coordinate analysis (PCoA) and plotting
PM-plot-taxa
Visualizing microbial community composition from sequencing data using Krona.
Q-Q
Draw a QQ plot for the given dataset
Survival
Draw a survival plot for the given dataset
Upset
Draw an upset for the given dataset
Venn
Draw a venn plot for the given dataset