Package index
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blueprint() - Create a Blueprint
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blueprint_default() - Default blueprint
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br() - Create a Branch in a Blueprint
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cast_exp()cast_plot()cast_table()cast_data() - Get Data from GlySmith Result
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forge_analysis() - Perform the Whole Analysis Pipeline
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inquire_blueprint()experimental - Create a Blueprint using Natural Language
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modify_blueprint()experimental - Modify a Blueprint using Natural Language
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polish_report() - Render a HTML Report for GlySmith Results
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quench_result() - Save GlySmith Result
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step_adjust_protein() - Step: Adjust Protein Abundance
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step_correlation() - Step: Correlation Analysis
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step_cox() - Step: Cox Proportional Hazards Model
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step_dea_anova() - Step: Differential Expression Analysis (DEA) using ANOVA
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step_dea_kruskal() - Step: Differential Expression Analysis (DEA) using Kruskal-Wallis test
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step_dea_limma() - Step: Differential Expression Analysis (DEA) using Limma
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step_dea_ttest() - Step: Differential Expression Analysis (DEA) using t-test
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step_dea_wilcox() - Step: Differential Expression Analysis (DEA) using Wilcoxon test
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step_derive_traits() - Step: Derived Trait Calculation
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step_heatmap() - Step: Heatmap
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step_ident_overview() - Step: Identification Overview
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step_logo() - Step: Logo Plot
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step_oplsda() - Step: Orthogonal Partial Least Squares Discriminant Analysis (OPLS-DA)
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step_pca() - Step: Principal Component Analysis (PCA)
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step_plot_qc() - Step: Plot QC
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step_plsda() - Step: Partial Least Squares Discriminant Analysis (PLS-DA)
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step_preprocess() - Step: Preprocessing
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step_quantify_motifs() - Step: Quantify Motifs
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step_roc() - Step: ROC Analysis
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step_sig_boxplot() - Step: Significant Variables Boxplot
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step_sig_enrich_go() - Step: GO Enrichment Analysis on Differentially Expressed Variables
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step_sig_enrich_kegg() - Step: KEGG Enrichment Analysis on Differentially Expressed Variables
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step_sig_enrich_reactome() - Step: Reactome Enrichment Analysis on Differentially Expressed Variables
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step_subset_groups() - Step: Subset Groups
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step_tsne() - Step: t-SNE
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step_umap() - Step: UMAP
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step_volcano() - Step: Volcano Plot
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write_blueprint()read_blueprint() - Save or Load a Blueprint