Public Git Hosting - bioperl-live.git/tree

drwxr-xr-x		..
-rw-r--r--	1852	AAChange.t	blob \| blame \| history \| raw
-rw-r--r--	991	AAReverseMutate.t	blob \| blame \| history \| raw
-rw-r--r--	26607	AlignIO.t	blob \| blame \| history \| raw
-rw-r--r--	4573	AlignStats.t	blob \| blame \| history \| raw
-rw-r--r--	983	AlignUtil.t	blob \| blame \| history \| raw
-rw-r--r--	889	Allele.t	blob \| blame \| history \| raw
-rw-r--r--	1981	Alphabet.t	blob \| blame \| history \| raw
-rw-r--r--	8792	Annotation.t	blob \| blame \| history \| raw
-rw-r--r--	2206	AnnotationAdaptor.t	blob \| blame \| history \| raw
-rw-r--r--	4822	Assembly.t	blob \| blame \| history \| raw
-rw-r--r--	3900	Biblio.t	blob \| blame \| history \| raw
-rw-r--r--	13540	BiblioReferences.t	blob \| blame \| history \| raw
-rw-r--r--	1514	Biblio_biofetch.t	blob \| blame \| history \| raw
-rw-r--r--	760	Biblio_eutils.t	blob \| blame \| history \| raw
-rw-r--r--	13270	BioDBGFF.t	blob \| blame \| history \| raw
-rw-r--r--	5056	BioDBSeqFeature.t	blob \| blame \| history \| raw
-rw-r--r--	2946	BioFetch_DB.t	blob \| blame \| history \| raw
-rw-r--r--	11859	BioGraphics.t	blob \| blame \| history \| raw
-rw-r--r--	933	BlastIndex.t	blob \| blame \| history \| raw
-rw-r--r--	3114	Chain.t	blob \| blame \| history \| raw
-rw-r--r--	1309	ClusterIO.t	blob \| blame \| history \| raw
-rw-r--r--	1597	Coalescent.t	blob \| blame \| history \| raw
-rw-r--r--	5084	CodonTable.t	blob \| blame \| history \| raw
-rwxr-xr-x	1855	Compatible.t	blob \| blame \| history \| raw
-rw-r--r--	679	CoordinateGraph.t	blob \| blame \| history \| raw
-rw-r--r--	17902	CoordinateMapper.t	blob \| blame \| history \| raw
-rw-r--r--	1248	Correlate.t	blob \| blame \| history \| raw
-rw-r--r--	5418	CytoMap.t	blob \| blame \| history \| raw
-rw-r--r--	15412	DB.t	blob \| blame \| history \| raw
-rwxr-xr-x	2581	DBCUTG.t	blob \| blame \| history \| raw
-rw-r--r--	1621	DBFasta.t	blob \| blame \| history \| raw
-rw-r--r--	2682	DBQual.t	blob \| blame \| history \| raw
-rw-r--r--	2437	DNAMutation.t	blob \| blame \| history \| raw
-rw-r--r--	2306	Domcut.t	blob \| blame \| history \| raw
-rw-r--r--	1592	ECnumber.t	blob \| blame \| history \| raw
-rwxr-xr-x	1140	ELM.t	blob \| blame \| history \| raw
-rw-r--r--	1665	EMBL_DB.t	blob \| blame \| history \| raw
-rw-r--r--	895	EMBOSS_Tools.t	blob \| blame \| history \| raw
-rw-r--r--	1387	ESEfinder.t	blob \| blame \| history \| raw
-rwxr-xr-x	36083	EUtilities.t	blob \| blame \| history \| raw
-rw-r--r--	1840	EncodedSeq.t	blob \| blame \| history \| raw
-rw-r--r--	1456	Exception.t	blob \| blame \| history \| raw
-rw-r--r--	1282	Exonerate.t	blob \| blame \| history \| raw
-rw-r--r--	4093	FeatureIO.t	blob \| blame \| history \| raw
-rw-r--r--	1127	FootPrinter.t	blob \| blame \| history \| raw
-rw-r--r--	1666	GDB.t	blob \| blame \| history \| raw
-rw-r--r--	3163	GFF.t	blob \| blame \| history \| raw
-rw-r--r--	1274	GOR4.t	blob \| blame \| history \| raw
-rw-r--r--	3915	GOterm.t	blob \| blame \| history \| raw
-rw-r--r--	579	GbrowseGFF.t	blob \| blame \| history \| raw
-rw-r--r--	810	Gel.t	blob \| blame \| history \| raw
-rw-r--r--	13781	GeneCoordinateMapper.t	blob \| blame \| history \| raw
-rw-r--r--	1803	Geneid.t	blob \| blame \| history \| raw
-rw-r--r--	2675	Genewise.t	blob \| blame \| history \| raw
-rw-r--r--	1313	Genomewise.t	blob \| blame \| history \| raw
-rw-r--r--	8654	Genpred.t	blob \| blame \| history \| raw
-rwxr-xr-x	2075	GraphAdaptor.t	blob \| blame \| history \| raw
-rw-r--r--	2772	GuessSeqFormat.t	blob \| blame \| history \| raw
-rw-r--r--	1302	HNN.t	blob \| blame \| history \| raw
-rw-r--r--	35930	Handler.t	blob \| blame \| history \| raw
-rw-r--r--	1938	HtSNP.t	blob \| blame \| history \| raw
-rw-r--r--	555	IUPAC.t	blob \| blame \| history \| raw
-rw-r--r--	5886	Index.t	blob \| blame \| history \| raw
-rw-r--r--	599	InstanceSite.t	blob \| blame \| history \| raw
-rw-r--r--	2250	InterProParser.t	blob \| blame \| history \| raw
-rw-r--r--	509	LargeLocatableSeq.t	blob \| blame \| history \| raw
-rw-r--r--	1895	LinkageMap.t	blob \| blame \| history \| raw
-rw-r--r--	2601	LiveSeq.t	blob \| blame \| history \| raw
-rw-r--r--	3330	LocatableSeq.t	blob \| blame \| history \| raw
-rw-r--r--	7738	Location.t	blob \| blame \| history \| raw
-rw-r--r--	6464	LocationFactory.t	blob \| blame \| history \| raw
-rw-r--r--	2585	LocusLink.t	blob \| blame \| history \| raw
-rw-r--r--	6070	MK.t	blob \| blame \| history \| raw
-rw-r--r--	14247	Map.t	blob \| blame \| history \| raw
-rw-r--r--	1694	MapIO.t	blob \| blame \| history \| raw
-rw-r--r--	4422	Matrix.t	blob \| blame \| history \| raw
-rw-r--r--	1158	MeSH.t	blob \| blame \| history \| raw
-rw-r--r--	1301	Measure.t	blob \| blame \| history \| raw
-rw-r--r--	7557	MetaSeq.t	blob \| blame \| history \| raw
-rwxr-xr-x	893	MicrosatelliteMarker.t	blob \| blame \| history \| raw
-rw-r--r--	1170	MiniMIMentry.t	blob \| blame \| history \| raw
-rw-r--r--	996	MitoProt.t	blob \| blame \| history \| raw
-rw-r--r--	1198	Molphy.t	blob \| blame \| history \| raw
-rw-r--r--	532	MultiFile.t	blob \| blame \| history \| raw
-rw-r--r--	887	Mutation.t	blob \| blame \| history \| raw
-rw-r--r--	2158	Mutator.t	blob \| blame \| history \| raw
-rw-r--r--	1287	NetPhos.t	blob \| blame \| history \| raw
-rw-r--r--	1696	Node.t	blob \| blame \| history \| raw
-rw-r--r--	7689	OMIMentry.t	blob \| blame \| history \| raw
-rw-r--r--	1907	OMIMentryAllelicVariant.t	blob \| blame \| history \| raw
-rw-r--r--	9767	OMIMparser.t	blob \| blame \| history \| raw
-rw-r--r--	984	OddCodes.t	blob \| blame \| history \| raw
-rw-r--r--	4695	Ontology.t	blob \| blame \| history \| raw
-rw-r--r--	3963	OntologyEngine.t	blob \| blame \| history \| raw
-rw-r--r--	769	OntologyStore.t	blob \| blame \| history \| raw
-rw-r--r--	12558	PAML.t	blob \| blame \| history \| raw
-rw-r--r--	2727	Perl.t	blob \| blame \| history \| raw
-rw-r--r--	5786	Phenotype.t	blob \| blame \| history \| raw
-rw-r--r--	1371	PhylipDist.t	blob \| blame \| history \| raw
-rw-r--r--	2753	PhyloNetwork.t	blob \| blame \| history \| raw
-rw-r--r--	3486	PhyloNetwork_Factory.t	blob \| blame \| history \| raw
-rw-r--r--	459	PhyloNetwork_GraphViz.t	blob \| blame \| history \| raw
-rw-r--r--	3529	PhyloNetwork_RandomFactory.t	blob \| blame \| history \| raw
-rw-r--r--	1085	PhyloNetwork_TreeFactory.t	blob \| blame \| history \| raw
-rw-r--r--	816	PhyloNetwork_muVector.t	blob \| blame \| history \| raw
-rw-r--r--	4716	PhysicalMap.t	blob \| blame \| history \| raw
-rw-r--r--	1665	Pictogram.t	blob \| blame \| history \| raw
-rw-r--r--	268	PodSyntax.t	blob \| blame \| history \| raw
-rw-r--r--	14262	PopGen.t	blob \| blame \| history \| raw
-rw-r--r--	1093	PopGenSims.t	blob \| blame \| history \| raw
-rw-r--r--	5650	PrimarySeq.t	blob \| blame \| history \| raw
-rw-r--r--	741	Primer.t	blob \| blame \| history \| raw
-rw-r--r--	653	Promoterwise.t	blob \| blame \| history \| raw
-rw-r--r--	2377	ProtDist.t	blob \| blame \| history \| raw
-rw-r--r--	4373	ProtMatrix.t	blob \| blame \| history \| raw
-rw-r--r--	2430	ProtPsm.t	blob \| blame \| history \| raw
-rwxr-xr-x	1089	Pseudowise.t	blob \| blame \| history \| raw
-rw-r--r--	1837	QRNA.t	blob \| blame \| history \| raw
-rw-r--r--	2170	RNAChange.t	blob \| blame \| history \| raw
-rw-r--r--	37802	RNA_SearchIO.t	blob \| blame \| history \| raw
-rw-r--r--	434	RandDistFunctions.t	blob \| blame \| history \| raw
-rw-r--r--	627	RandomTreeFactory.t	blob \| blame \| history \| raw
-rw-r--r--	3534	Range.t	blob \| blame \| history \| raw
-rw-r--r--	1880	RangeI.t	blob \| blame \| history \| raw
-rw-r--r--	1566	RefSeq.t	blob \| blame \| history \| raw
-rwxr-xr-x	2774	Registry.t	blob \| blame \| history \| raw
-rw-r--r--	1225	Relationship.t	blob \| blame \| history \| raw
-rw-r--r--	1868	RelationshipType.t	blob \| blame \| history \| raw
-rw-r--r--	4189	RemoteBlast.t	blob \| blame \| history \| raw
-rw-r--r--	951	RepeatMasker.t	blob \| blame \| history \| raw
-rw-r--r--	8300	RestrictionAnalysis.t	blob \| blame \| history \| raw
-rw-r--r--	1312	RestrictionIO.t	blob \| blame \| history \| raw
-rw-r--r--	2409	Root-Utilities.t	blob \| blame \| history \| raw
-rw-r--r--	3882	RootI.t	blob \| blame \| history \| raw
-rw-r--r--	2752	RootIO.t	blob \| blame \| history \| raw
-rw-r--r--	2292	RootStorable.t	blob \| blame \| history \| raw
-rw-r--r--	653	SNP.t	blob \| blame \| history \| raw
-rwxr-xr-x	1185	Scansite.t	blob \| blame \| history \| raw
-rw-r--r--	655	SearchDist.t	blob \| blame \| history \| raw
-rw-r--r--	107130	SearchIO.t	blob \| blame \| history \| raw
-rw-r--r--	1149	Seg.t	blob \| blame \| history \| raw
-rw-r--r--	5820	Seq.t	blob \| blame \| history \| raw
-rw-r--r--	2055	SeqAnalysisParser.t	blob \| blame \| history \| raw
-rw-r--r--	3515	SeqBuilder.t	blob \| blame \| history \| raw
-rw-r--r--	2289	SeqDiff.t	blob \| blame \| history \| raw
-rw-r--r--	6238	SeqEvolution.t	blob \| blame \| history \| raw
-rw-r--r--	2695	SeqFeatAnnotated.t	blob \| blame \| history \| raw
-rw-r--r--	4590	SeqFeatCollection.t	blob \| blame \| history \| raw
-rw-r--r--	11772	SeqFeature.t	blob \| blame \| history \| raw
-rw-r--r--	1746	SeqHound_DB.t	blob \| blame \| history \| raw
-rw-r--r--	3393	SeqIO.t	blob \| blame \| history \| raw
-rw-r--r--	1085	SeqPattern.t	blob \| blame \| history \| raw
-rw-r--r--	3456	SeqStats.t	blob \| blame \| history \| raw
-rw-r--r--	7553	SeqUtils.t	blob \| blame \| history \| raw
-rw-r--r--	949	SeqVersion.t	blob \| blame \| history \| raw
-rw-r--r--	1243	SeqWords.t	blob \| blame \| history \| raw
-rw-r--r--	1418	SequenceFamily.t	blob \| blame \| history \| raw
-rw-r--r--	1014	Sigcleave.t	blob \| blame \| history \| raw
-rw-r--r--	1120	Signalp.t	blob \| blame \| history \| raw
-rw-r--r--	13020	Signalp2.t	blob \| blame \| history \| raw
-rw-r--r--	5973	Sim4.t	blob \| blame \| history \| raw
-rw-r--r--	738	SimilarityPair.t	blob \| blame \| history \| raw
-rw-r--r--	17209	SimpleAlign.t	blob \| blame \| history \| raw
-rw-r--r--	1238	SiteMatrix.t	blob \| blame \| history \| raw
-rw-r--r--	1433	Sopma.t	blob \| blame \| history \| raw
-rw-r--r--	1828	Species.t	blob \| blame \| history \| raw
-rw-r--r--	1417	Spidey.t	blob \| blame \| history \| raw
-rw-r--r--	6957	StandAloneBlast.t	blob \| blame \| history \| raw
-rw-r--r--	2157	StructIO.t	blob \| blame \| history \| raw
-rw-r--r--	3102	Structure.t	blob \| blame \| history \| raw
-rw-r--r--	733	Symbol.t	blob \| blame \| history \| raw
-rw-r--r--	673	TagHaplotype.t	blob \| blame \| history \| raw
-rw-r--r--	9703	TandemRepeatsFinder.t	blob \| blame \| history \| raw
-rw-r--r--	4606	TaxonTree.t	blob \| blame \| history \| raw
-rw-r--r--	7769	Taxonomy.t	blob \| blame \| history \| raw
-rw-r--r--	1587	Tempfile.t	blob \| blame \| history \| raw
-rw-r--r--	3426	Term.t	blob \| blame \| history \| raw
-rw-r--r--	724	Tmhmm.t	blob \| blame \| history \| raw
-rw-r--r--	1040	Tools.t	blob \| blame \| history \| raw
-rw-r--r--	9894	Tree.t	blob \| blame \| history \| raw
-rw-r--r--	1648	TreeBuild.t	blob \| blame \| history \| raw
-rw-r--r--	7498	TreeIO.t	blob \| blame \| history \| raw
-rw-r--r--	2328	UCSCParsers.t	blob \| blame \| history \| raw
-rw-r--r--	4601	Unflattener.t	blob \| blame \| history \| raw
-rw-r--r--	4462	Unflattener2.t	blob \| blame \| history \| raw
-rw-r--r--	8046	UniGene.t	blob \| blame \| history \| raw
-rw-r--r--	2610	Variation_IO.t	blob \| blame \| history \| raw
-rw-r--r--	2563	WABA.t	blob \| blame \| history \| raw
-rwxr-xr-x	3927	WrapperBase.t	blob \| blame \| history \| raw
-rw-r--r--	1505	abi.t	blob \| blame \| history \| raw
-rw-r--r--	1321	ace.t	blob \| blame \| history \| raw
-rw-r--r--	1635	alignUtilities.t	blob \| blame \| history \| raw
-rw-r--r--	662	asciitree.t	blob \| blame \| history \| raw
-rw-r--r--	15665	blast_pull.t	blob \| blame \| history \| raw
-rw-r--r--	977	bsml_sax.t	blob \| blame \| history \| raw
-rw-r--r--	630	chaosxml.t	blob \| blame \| history \| raw
-rw-r--r--	824	cigarstring.t	blob \| blame \| history \| raw
-rwxr-xr-x	3008	consed.t	blob \| blame \| history \| raw
-rw-r--r--	1869	cross_match.t	blob \| blame \| history \| raw
-rw-r--r--	1522	ctf.t	blob \| blame \| history \| raw
drwxr-xr-x	-	data	tree \| history
-rw-r--r--	1297	dblink.t	blob \| blame \| history \| raw
-rw-r--r--	875	ePCR.t	blob \| blame \| history \| raw
-rw-r--r--	5256	embl.t	blob \| blame \| history \| raw
-rw-r--r--	15433	entrezgene.t	blob \| blame \| history \| raw
-rw-r--r--	2233	est2genome.t	blob \| blame \| history \| raw
-rw-r--r--	1519	exp.t	blob \| blame \| history \| raw
-rw-r--r--	600	fasta.t	blob \| blame \| history \| raw
-rw-r--r--	2224	flat.t	blob \| blame \| history \| raw
-rw-r--r--	1883	game.t	blob \| blame \| history \| raw
-rw-r--r--	548	gcg.t	blob \| blame \| history \| raw
-rw-r--r--	17455	genbank.t	blob \| blame \| history \| raw
-rw-r--r--	1208	gerp.t	blob \| blame \| history \| raw
-rw-r--r--	10637	hmmer.t	blob \| blame \| history \| raw
-rwxr-xr-x	7994	hmmer_pull.t	blob \| blame \| history \| raw
-rw-r--r--	1375	interpro.t	blob \| blame \| history \| raw
-rw-r--r--	3212	kegg.t	blob \| blame \| history \| raw
-rw-r--r--	1268	largefasta.t	blob \| blame \| history \| raw
-rw-r--r--	2519	largepseq.t	blob \| blame \| history \| raw
-rw-r--r--	833	lasergene.t	blob \| blame \| history \| raw
drwxr-xr-x	-	lib	tree \| history
-rwxr-xr-x	1267	lucy.t	blob \| blame \| history \| raw
-rwxr-xr-x	1316	masta.t	blob \| blame \| history \| raw
-rw-r--r--	441	metafasta.t	blob \| blame \| history \| raw
-rw-r--r--	392	multiple_fasta.t	blob \| blame \| history \| raw
-rw-r--r--	4125	obo_parser.t	blob \| blame \| history \| raw
-rwxr-xr-x	1144	pICalculator.t	blob \| blame \| history \| raw
-rw-r--r--	3368	phd.t	blob \| blame \| history \| raw
-rw-r--r--	575	pir.t	blob \| blame \| history \| raw
-rw-r--r--	1531	pln.t	blob \| blame \| history \| raw
-rw-r--r--	4723	primaryqual.t	blob \| blame \| history \| raw
-rwxr-xr-x	1156	primedseq.t	blob \| blame \| history \| raw
-rwxr-xr-x	1273	primer3.t	blob \| blame \| history \| raw
-rw-r--r--	6817	protgraph.t	blob \| blame \| history \| raw
-rw-r--r--	5263	psm.t	blob \| blame \| history \| raw
-rw-r--r--	1775	qual.t	blob \| blame \| history \| raw
-rw-r--r--	517	raw.t	blob \| blame \| history \| raw
-rw-r--r--	9681	rnamotif.t	blob \| blame \| history \| raw
-rwxr-xr-x	5040	scf.t	blob \| blame \| history \| raw
-rw-r--r--	8062	seq_quality.t	blob \| blame \| history \| raw
-rwxr-xr-x	1929	seqfeaturePrimer.t	blob \| blame \| history \| raw
-rw-r--r--	1119	seqread_fail.t	blob \| blame \| history \| raw
-rwxr-xr-x	1412	sequencetrace.t	blob \| blame \| history \| raw
-rw-r--r--	6203	seqwithquality.t	blob \| blame \| history \| raw
-rwxr-xr-x	7960	simpleGOparser.t	blob \| blame \| history \| raw
-rw-r--r--	1770	singlet.t	blob \| blame \| history \| raw
-rw-r--r--	1309	sirna.t	blob \| blame \| history \| raw
-rw-r--r--	1725	splicedseq.t	blob \| blame \| history \| raw
-rw-r--r--	13281	swiss.t	blob \| blame \| history \| raw
-rw-r--r--	1020	tRNAscanSE.t	blob \| blame \| history \| raw
-rw-r--r--	525	tab.t	blob \| blame \| history \| raw
-rw-r--r--	5139	table.t	blob \| blame \| history \| raw
-rw-r--r--	4847	targetp.t	blob \| blame \| history \| raw
-rw-r--r--	2488	tigrxml.t	blob \| blame \| history \| raw
-rwxr-xr-x	1118	tinyseq.t	blob \| blame \| history \| raw
-rwxr-xr-x	1208	trim.t	blob \| blame \| history \| raw
-rw-r--r--	1532	ztr.t	blob \| blame \| history \| raw