Biological Data Analysis and Visualization
![[R logo]](../../../doc/html/Rlogo.svg)
![[Up]](../../../doc/html/left.jpg)
![[Top]](../../../doc/html/up.jpg)
Documentation for package ‘BioUtils’ version 0.1.3
Help Pages
| adaptive.t.test | Perform Adaptive T-Test |
| adjust.pvalues | Adjust P-Values for Multiple Comparisons |
| analyze.gene | Analyze Gene Expression Between Groups |
| build.analysis.df | Build Analysis Data Frame |
| classify.effect.size | Classify Effect Size |
| compute.ci | Compute Confidence Interval for Effect Size |
| compute.effect.size | Compute Effect Size (Cohen's d) |
| correlation.heatmap.plot | Plot Gene Co-expression Correlation Heatmap |
| extract.expression | Extract Expression and Metadata from GEO Dataset |
| find.probe.by.gene | Find Probe IDs by Gene Name |
| fit.lasso | Fit LASSO Regression for Multi-Gene Biomarker Discovery |
| flag.biological.relevance | Assess Biological Relevance of Gene Expression Differences |
| gene.analysis.plot | Plot Gene Expression with Automatic Statistical Analysis |
| gene.correlation.matrix | Compute Pairwise Gene Co-expression Correlation Matrix |
| get.gene.expression | Extract Gene Expression by Probe ID |
| get.gene.name | Resolve Probe IDs to Gene Names |
| load.geo.soft | Load GEO Dataset from SOFT File |
| nonparametric.test | Perform Nonparametric Group Comparison |
| pca.plot | Plot PCA of Sample Expression Profiles |
| run.gsea | Run Gene Set Enrichment Analysis |
| run.limma.de | Run Differential Expression Analysis Using limma |
| volcano.plot | Plot Volcano Plot from Differential Expression Results |