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Current directory:[bioperl] / bioperl-live / Bio / Tools
Files shown:63
File Rev. Age Author Last log entry
(dir) Alignment/        
(dir) Analysis/        
(dir) Attic/   [show contents]        
(dir) BPlite/        
(dir) Blast/        
(dir) EMBOSS/        
(dir) EUtilities/        
(dir) HMMER/        
(dir) PPSEARCH/        
(dir) PRFSCAN/        
(dir) PRINTS/        
(dir) Phylo/        
(dir) Prediction/        
(dir) Primer/        
(dir) Run/        
(dir) SiRNA/        
(dir) Signalp/        
(dir) Sim4/        
(dir) Spidey/        
(dir) StateMachine/        
(file) AlignFactory.pm (graph)   1.9  22 months  sendu  use base, return true
(file) AnalysisResult.pm (graph)   1.19  22 months  sendu  use base, return true
(file) BPbl2seq.pm (graph)   1.33  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) BPlite.pm (graph)   1.47  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) BPpsilite.pm (graph)   1.33  22 months  tseemann  Replaced /^\Q...\E$/ and /\Q...\E/ code with clearer more efficient 'eq' and 'in...
(file) Blat.pm (graph)   1.10  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) CodonTable.pm (graph)   1.40  17 months  heikki  typo in documentation
(file) Coil.pm (graph)   1.9  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) ECnumber.pm (graph)   1.15  22 months  tseemann  Removed "use Bio::Root::Object" relic; all tests pass. It already ISA Bio::Root:...
(file) EPCR.pm (graph)   1.20  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) ERPIN.pm (graph)   1.10  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) ESTScan.pm (graph)   1.15  22 months  sendu  use base, return true
(file) EUtilities.pm (graph)   1.8  12 months  cjfields  add docsum printing convenience method.
(file) Eponine.pm (graph)   1.14  22 months  sendu  use base, return true
(file) Est2Genome.pm (graph)   1.20  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Fgenesh.pm (graph)   1.16  22 months  mcook   allows >999 predictions to be parsed without error
(file) FootPrinter.pm (graph)   1.13  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) GFF.pm (graph)   1.68  10 months  scain  Fix for the case when the Parent tag isn't present; also improving regex in GFF ...
(file) Gel.pm (graph)   1.13  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Geneid.pm (graph)   1.8  9 months  cjfields  bug 2392
(file) Genemark.pm (graph)   1.22  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Genewise.pm (graph)   1.29  13 months  jason  move transcript score to transcript, set gene score as overall score FWIW
(file) Genomewise.pm (graph)   1.11  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Genscan.pm (graph)   1.31  22 months  sendu  use base, return true
(file) Glimmer.pm (graph)   1.13  9 months  cjfields  fix fuzzy location bug
(file) Grail.pm (graph)   1.12  22 months  sendu  use base, return true
(file) GuessSeqFormat.pm (graph)   1.20  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) HMM.pm (graph)   1.11  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Hmmpfam.pm (graph)   1.11  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) IUPAC.pm (graph)   1.32  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Infernal.pm (graph)   1.5  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Lucy.pm (graph)   1.18  22 months  heikki  using lexically scoped file handles
(file) MZEF.pm (graph)   1.15  22 months  sendu  use base, return true
(file) OddCodes.pm (graph)   1.21  22 months  sendu  use base, return true
(file) Primer3.pm (graph)   1.23  22 months  bosborne  Email changed
(file) Prints.pm (graph)   1.15  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Profile.pm (graph)   1.10  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Promoterwise.pm (graph)   1.11  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) PrositeScan.pm (graph)   1.3  22 months  sendu  use base, return true
(file) Protparam.pm (graph)   1.1  14 months  rdobson  Initial submission
(file) Pseudowise.pm (graph)   1.11  22 months  sendu  use base, return true
(file) QRNA.pm (graph)   1.8  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) RNAMotif.pm (graph)   1.16  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) RandomDistFunctions.pm (graph)   1.8  22 months  sendu  use base, return true
(file) RepeatMasker.pm (graph)   1.14  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) RestrictionEnzyme.pm (graph)   1.42  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Seg.pm (graph)   1.12  22 months  tseemann  Completely re-wrote and documented Seg.pm parser and added sample input and test...
(file) SeqPattern.pm (graph)   1.26  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) SeqStats.pm (graph)   1.32  22 months  sendu  use base, return true
(file) SeqWords.pm (graph)   1.18  22 months  sendu  use base, return true
(file) SiRNA.pm (graph)   1.15  22 months  tseemann  Removed empty CONTRIBUTORS sections in POD.
(file) Sigcleave.pm (graph)   1.24  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) Signalp.pm (graph)   1.14  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) TandemRepeatsFinder.pm (graph)   1.2  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) TargetP.pm (graph)   1.3  11 months  cjfields  Feature-Annotation rollback (merged over from branch)
(file) Tmhmm.pm (graph)   1.12  22 months  jason  small POD fixes
(file) WebBlat.pm (graph)   1.7  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) dpAlign.pm (graph)   1.21  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) ipcress.pm (graph)   1.11  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) isPcr.pm (graph)   1.11  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) pICalculator.pm (graph)   1.13  22 months  mauricio  Updating URLs
(file) pSW.pm (graph)   1.29  14 months  sendu  removed bad "new Bio::Module" syntax, replaced with "Bio::Module->new"
(file) tRNAscanSE.pm (graph)   1.8  11 months  jason  lowercase typo
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