Search results for "distribution:BioPerl-Run Bio::SeqFeature::Generic"
Bio::Tools::Run::Seg - Object for identifying low complexity regions in a given protein seequence.
Seg is a program which identifies low complexity regions in proteins. It was developed by Wootton and Federhen at NCBI....
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Coil - wrapper for ncoils program
This module is a wrapper for the ncoils program available via <http://www.russell.embl-heidelberg.de/coils/coils.tar.gz> for predicting coiled coils in protein sequences. By default it looks for an executable called *ncoils* and data/parameter files ...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Mdust - Perl extension for Mdust nucleotide filtering
Perl wrapper for the nucleic acid complexity filtering program mdust as available from TIGR via <http://www.tigr.org/tdb/tgi/software/>. Takes a Bio::SeqI or Bio::PrimarySeqI object of type DNA as input. If a Bio::Seq::RichSeqI is passed then the low...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Tmhmm - Object for identifying transmembrane helixes in a given protein seequence.
Tmhmm is a program for identifying transmembrane helices in proteins. You must have the environmental variable TMHMMDIR set to the base directory where *tmhmm* and it's associated data/option files reside (NOT the bin directory where the actual execu...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Prints
FingerPRINTScan II is a PRINTS fingerprint identification algorithm. Copyright (C) 1998,1999 Phil Scordis...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Signalp
wrapper module for Signalp program...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Profile
Wrapper module for the pfscan program...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Primate
Primate is available under to ensembl-nci package at http://cvsweb.sanger.ac.uk/cgi-bin/cvsweb.cgi/ensembl-nci/?cvsroot=Ensem bl...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Pseudowise - Object for prediting pseudogenes in a given sequence given a protein and a cdna sequence
Pseudowise is a pseudogene predition program developed by Ewan Birney http://www.sanger.ac.uk/software/wise2....
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Alignment::Sim4 - Wrapper for Sim4 program that allows for alignment of cdna to genomic sequences
Sim4 program is developed by Florea et al. for aligning cdna/est sequence to genomic sequences Florea L, Hartzell G, Zhang Z, Rubin GM, Miller W. A computer program for aligning a cDNA sequence with a genomic DNA sequence. Genome Res 1998 Sep;8(9):96...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC
Bio::Tools::Run::Alignment::Exonerate
Wrapper for Exonerate alignment program. You can get exonerate at http://www.ebi.ac.uk/~guy/exonerate/. This wrapper is written without parameter checking. All parameters are passed via the arugment parameter that is passed in the constructor. See SY...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC