Man pages for PriceLab/TrenaMultiScore
TrenaMultiScore
| addChIP | add 1 if a motif hit intersects a ChIP-seq hit, otherwise 0. |
| addDistanceToTSS | append 'TSS' column to the accumulating table |
| addGeneExpressionCorrelations | add a tf/targetGene correlations score for those TFs also in... |
| addGenicAnnotations | add intron, exon, utr, promoter, etc annotations |
| addRnaBindingProteins | query remote khaleesi (ingested POSTAR2) database for rna... |
| findOpenChromatin | find open chromatin in the current gene region, or (if... |
| getFimoTFBS | get scored FIMO motif binding sites |
| getGeneHancerRegion | return the full extent of GeneHancer regions for the... |
| getMoodsTFBS | get scored moods motif binding sites |
| getMultiScoreTable | returns the current state of scored motif matches |
| getOpenChromatin | retrieve currently assigned open chromatin |
| getProject | return the TMS project |
| getRnaBindingProteins | return previously queried data.frame of rna binding protein... |
| getTargetGeneInfo | get basic stats on the primary transcript |
| scoreMotifHitsForConservation | add open chromatin intersection info (none, partial, complete... |
| scoreMotifHitsForGeneHancer | attach a genehancer score to each motif hit, 0 if none |
| TrenaMultiScore-class | TrenaMultiScore-class |
