mus_musculus
31505229
\n
32192076
String[] split = input.split("\n");
Vector nonEmpty = new Vector();
for (int i = 0; i < split.length; i++){
if (!(split[i].equals("")))
{
nonEmpty.add(split[i].trim());
}
}
String[] non_empty = new String[nonEmpty.size()];
for (int i = 0; i < non_empty.length; i ++)
{
non_empty[i] = nonEmpty.elementAt(i);
}
String output = "";
for (int i = 0; i < non_empty.length; i++)
{
output = output + (String) (non_empty[i] + "\n");
}
input
output
String[] split = input.split("\n");
Vector nonEmpty = new Vector();
for (int i = 0; i < split.length; i++)
{
String trimmed = split[i].trim();
nonEmpty.add(trimmed);
}
String output = "";
for (int i = 0; i < nonEmpty.size(); i++)
{
output = output + "uniprot:" + (String) (nonEmpty.elementAt(i) + "\n");
}
input
output
String[] split = input.split("\n");
Vector nonEmpty = new Vector();
for (int i = 0; i < split.length; i++)
{
String trimmed = split[i].trim();
String[] trimmedSplit = trimmed.split(":");
if (trimmedSplit.length == 2)
{
nonEmpty.add(trimmedSplit[1].trim());
}
}
String output = "";
for (int i = 0; i < nonEmpty.size(); i++)
{
output = output + (String) (nonEmpty.elementAt(i) + "\n");
}
input
output
swiss
17
org.embl.ebi.escience.scuflworkers.java.SplitByRegex
get gene information
http://xml.nig.ac.jp/wsdl/Ensembl.wsdl
getGeneInfo
String[] split = input.split("\n");
Vector nonEmpty = new Vector();
for (int i = 0; i < split.length; i++)
{
String trimmed = split[i].trim();
String[] trimmedSplit = trimmed.split("\t");
if (trimmedSplit.length == 2)
{
nonEmpty.add(trimmedSplit[1].trim());
}
}
String output = "";
for (int i = 0; i < nonEmpty.size(); i++)
{
output = output + (String) (nonEmpty.elementAt(i) + "\n");
}
input
output
http://soap.genome.jp/KEGG.wsdl
bconv
extract information from geneGeneInfo processor at http://xml.nig.ac.jp/wsdl/Ensembl.wsdl
http://phoebus.cs.man.ac.uk:1977/axis/services/seq_analysis.parse_ddbj_gene_info
Retrieves the current databases from ENSEMBL for a species
http://phoebus.cs.man.ac.uk:1977/axis/services/qtl_analysis.getcurrentdatabase
Retrieves a list of Ensembl genes for a given species, chromosome and position
http://phoebus.cs.man.ac.uk:1977/axis/services/qtl_analysis.getgenesbyspecies
org.embl.ebi.escience.scuflworkers.java.SplitByRegex
\n
org.embl.ebi.escience.scuflworkers.java.StringListMerge
http://soap.genome.jp/KEGG.wsdl
get_pathways_by_genes
org.embl.ebi.escience.scuflworkers.java.StringConcat
http://phoebus.cs.man.ac.uk:8081/axis/EnsemblListner.jws?wsdl
lister
org.embl.ebi.escience.scuflworkers.java.StringListMerge
org.embl.ebi.escience.scuflworkers.java.StringListMerge
org.embl.ebi.escience.scuflworkers.java.StringListMerge
http://soap.genome.jp/KEGG.wsdl
btit
org.embl.ebi.escience.scuflworkers.java.StringConcat
org.embl.ebi.escience.scuflworkers.java.StringListMerge