Modifier and Type | Field and Description |
---|---|
boolean |
DEFAULT_SEARCH_CUT_GA |
static java.lang.String |
HMMER_SERVICE |
Constructor and Description |
---|
RemoteHmmerScan() |
Modifier and Type | Method and Description |
---|---|
java.util.SortedSet<HmmerResult> |
scan(ProteinSequence sequence) |
java.util.SortedSet<HmmerResult> |
scan(ProteinSequence sequence,
java.net.URL serviceLocation)
Scans a protein sequence for Pfam profile matches.
|
public static java.lang.String HMMER_SERVICE
public boolean DEFAULT_SEARCH_CUT_GA
public java.util.SortedSet<HmmerResult> scan(ProteinSequence sequence) throws java.io.IOException
public java.util.SortedSet<HmmerResult> scan(ProteinSequence sequence, java.net.URL serviceLocation) throws java.io.IOException
sequence
- serviceLocation
- java.io.IOException