| BasicGenomicAnnotationReader() | broad.core.annotation.BasicGenomicAnnotationReader | |
| BasicGenomicAnnotationReader(String annotationFile) | broad.core.annotation.BasicGenomicAnnotationReader | |
| BasicGenomicAnnotationReader(String annotationFile, String annotationType) | broad.core.annotation.BasicGenomicAnnotationReader | |
| createAnnotation(GenomicAnnotation a) | broad.core.annotation.BasicGenomicAnnotationReader | |
| find(final String chr, final int startPos, final int endPos) | broad.core.annotation.BasicGenomicAnnotationReader | |
| getAnnotationList() | broad.core.annotation.BasicGenomicAnnotationReader | |
| INTER_VERTICAL_SPACING | broad.core.annotation.BasicGenomicAnnotationReader | static |
| load() | broad.core.annotation.BasicGenomicAnnotationReader | |
| parse(String file, GenomicAnnotationFilter< GenomicAnnotation > filter, AnnotationHandler handler) | broad.core.annotation.BasicGenomicAnnotationReader | |
| parse(BufferedReader br, GenomicAnnotationFilter< GenomicAnnotation > filter, AnnotationHandler handler) | broad.core.annotation.BasicGenomicAnnotationReader | |
| parseRawPointRegions(String[] rawRegions) | broad.core.annotation.BasicGenomicAnnotationReader | static |
| parseRawRegions(String[] rawRegions) | broad.core.annotation.BasicGenomicAnnotationReader | static |
| plot(Graphics2D g2d, int start, int end, List< GenomicAnnotation > annots) | broad.core.annotation.BasicGenomicAnnotationReader | |
| POINT_PATTERN | broad.core.annotation.BasicGenomicAnnotationReader | static |
| REG_PATTERN | broad.core.annotation.BasicGenomicAnnotationReader | static |
| RIGHT_MARGIN | broad.core.annotation.BasicGenomicAnnotationReader | static |
| setAnnotationList(List< GenomicAnnotation > list) | broad.core.annotation.BasicGenomicAnnotationReader | protected |
| source | broad.core.annotation.BasicGenomicAnnotationReader | protected |
| VERTICAL_SPACING | broad.core.annotation.BasicGenomicAnnotationReader | static |
1.8.7
