Man pages for nygenome/SCANVIS
SCANVIS - a tool for SCoring, ANnotating and VISualizing splice junctions
| GBM | list of 3 TCGA glioblastoma samples, parts thereof, outputs... |
| gbm3 | part of a TCGA glioblastoma sample from STAR alignment SJ.tab... |
| gbm3.vcf | a toy set of 6 variants that pair up with the gbm3 data... |
| gen19 | parts of the annotation object created by the... |
| gene2roi | gene name/s to region of interest |
| IR2Mat | IRanges to Matrix |
| ls_url | list files available at annotation/gencode url |
| LUAD | list of 3 TCGA lung adenocarcinoma samples, parts thereof,... |
| LUSC | list of 3 TCGA lung squamous cell carcinoma samples, parts... |
| SCANVISannotation | assembles annotation from gtf file into SCANVISreadable... |
| SCANVISexamples | Data for running SCANVISexamples |
| SCANVISlinkvar | maps variants to SCANVISscored junctions |
| SCANVISmerge | merges multiple SCANVISsamples |
| SCANVIS-package | SCANVIS - a tool for SCoring, ANnotating and VISualizing... |
| SCANVISreadSTAR | upload SJ.tab STAR file in SCANVISuse |
| SCANVISscan | SCore and ANnotate splice junctions |
| SCANVISvisual | a sashimi-style visualization tool |
