Package | Description |
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org.biojava.bio.program.gff |
GFF manipulation.
|
Modifier and Type | Class and Description |
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static class |
GFFRecordFilter.AcceptAll
Implementation of GFFRecordFilter that accepts everything.
|
static class |
GFFRecordFilter.FeatureFilter
Implementation of GFFRecordFilter that accepts
records based upon the feature field.
|
static class |
GFFRecordFilter.FrameFilter |
static class |
GFFRecordFilter.NotFilter |
static class |
GFFRecordFilter.SequenceFilter
Implementation of GFFRecordFilter that accepts
records based upon the sequence name.
|
static class |
GFFRecordFilter.SourceFilter
Implementation of GFFRecordFilter that accepts
records based upon the source field.
|
static class |
GFFRecordFilter.StrandFilter |
Modifier and Type | Field and Description |
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static GFFRecordFilter |
GFFRecordFilter.ACCEPT_ALL
A GFFRecordFilter that accepts everything.
|
Modifier and Type | Method and Description |
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GFFRecordFilter |
GFFRecordFilter.NotFilter.getFilter() |
Modifier and Type | Method and Description |
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GFFEntrySet |
GFFEntrySet.filter(GFFRecordFilter filter)
Filter this entry set into another set.
|
static GFFEntrySet |
GFFTools.readGFF(BufferedReader gffIn,
GFFRecordFilter recFilt)
Read all GFF entries matching a filter from a buffered reader.
|
static GFFEntrySet |
GFFTools.readGFF(File inFile,
GFFRecordFilter recFilt)
Reads a GFFEntrySet from a file with the specified filter.
|
static GFFEntrySet |
GFFTools.readGFF(String fileName,
GFFRecordFilter recFilt)
Deprecated.
use: readGff(File,GFFRecordFilter)
|
void |
GFFRecordFilter.NotFilter.setFilter(GFFRecordFilter filter) |
Constructor and Description |
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GFFFilterer(GFFDocumentHandler handler,
GFFRecordFilter filter)
Create a new GFFFilterer that will forward
to handler everything that
filter accepts.
|
NotFilter(GFFRecordFilter filter) |
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