Man pages for sarangian/deaRscripts
Differential Expression Analysis based on the read count data generated by either of Salmon, Kallisto, featureCounts and perform statistical analysis to discover quantitative changes in expression levels between two different experimental groups
| exportResults.DESeq2 | Export results for DESeq2 analyses |
| exportResults.edgeR | Export results for edgeR analyses |
| loadTargetFile | Load target file |
| nDiffTotal | Number of differentially expressed features per comparison |
| run.DESeq2_corset | Wrapper to run DESeq2 |
| run.DESeq2_trans | Wrapper to run DESeq2 |
| run.edgeR | Wrapper to run edgeR |
| run.edgeR_trans | Wrapper to run edgeR |
| summarizeResults.DESeq2 | Summarize DESeq2 analysis |
| summarizeResults.edgeR | Summarize edgeR analysis |
| tr2g_EnsDb | Get transcript and gene info from EnsDb objects |
| tr2g_ensembl | Get transcript and gene info from Ensembl |
| tr2g_fasta | Get transcript and gene info from names in FASTA files |
| tr2g_gff3 | Get transcript and gene info from GFF3 file |
| tr2g_GRanges | Get transcript and gene info from GRanges |
| tr2g_gtf | Get transcript and gene info from GTF file |
| tr2g_junction | tr2g for exon-exon junctions |
| tr2g_TxDb | Get transcript and gene info from TxDb objects |
