Man pages for jma1991/Daim
Analysis, interpretation, and visualization of DamID-seq data
| annotatePeaks | Annotate Regions in the Genome |
| callPeaks | Call peaks from DamID-seq data |
| centerMotif | Center regions by motif |
| computeInput | Compute Methylation for Input |
| Daim | Daim Package |
| daimTreat | Empirical Bayes Statistics For Differential Expression |
| digestGenome | Restriction digest of genome |
| filterBySize | Filter Ranges By Size |
| fragmentCounts | Count reads in restriction fragments |
| genomeInfo | Genome Information Table |
| normalizeBias | Normalize restriction fragment biases |
| plotComplexity | Plot restriction fragment complexity |
| plotCorrelation | Plot correlation between two samples |
| plotCoverage | Cumulative distribution of sequencing coverage |
| plotDensity | Plot Abundance Densities |
| plotEnrichment | Distribution of reads along the genome |
| plotFeature | plotFeature |
| plotMA | Brand-Altman plot |
| plotMDS | Multidimensional Scaling |
| plotPCA | Principal Components Analysis |
| plotTSS | plotTSS |
| rollAssay | Summarize counts from neighbouring ranges |
| searchMotif | Known motif search |
| writeAssay | Write assay to a bigWig file |
| writeBroad | Write a GRanges object as a broadPeak file |
| writeRatio | Write ratio to a bigWig file |
