Man pages for j-andrews7/OneLinerOmics
One-liner RNA-seq and ChIP-seq Analyses
| CreateOutputStructure | Create output directory structure |
| PlotChIPAnnos | Plot ChIP annotation breakdowns |
| PlotChIPHeatmaps | Plot ChIP heatmaps |
| PlotChIPPCAs | Plot ChIP PCAs |
| PlotEnrichments | Perform GO/Pathway enrichment for DEGs or DBRs via enrichR |
| PlotRNABoxplots | Plot gene counts as box plots |
| PlotRNACombinedHeatmaps | Generate gene heatmaps for all DEGs from a list of DESeq2... |
| PlotRNADEGPCAs | Plot PCAs from variance stabilized counts for differentially... |
| PlotRNAEDAPCAs | Plot PCAs from variance stabilized counts for EDA |
| PlotRNAHeatmaps | Generate per comparison DEG heatmaps for a list of DESeq2... |
| PlotRNASampleDistances | Visualize sample distances from variance stabilized counts |
| PlotRNAVarianceTransformations | Perform and visualize different variance stabilization... |
| PlotRNAVolcanoes | Create volcano plots from a list of DESeq2 Results objects |
| ProcessDBRs | Extract, visualize, and save DBRs |
| ProcessDEGs | Extract, visualize, and save DEG lists |
| RunChIPQC | Run ChIPQC on a sample sheet |
| RunDESeq2 | Run DESeq2 analyses |
| RunDiffBind | Run DiffBind analysis on a samplesheet |
| SaveResults | Save results |
