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Coretta Scott King Bio software
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Coretta Scott King Bio

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Added: November 05, 2010 | Visits: 939

Bio::TreeIO::svggraph Bio::TreeIO::svggraph is a simple output format that converts a Tree object to an SVG output. SYNOPSIS use Bio::TreeIO; my $in = new Bio::TreeIO(-file => input, -format => newick); my $out = new Bio::TreeIO(-file => >output, -format => svggraph); while( my $tree = $in->next_tree ) { my... Platforms: *nix

License: Freeware Size: 4.7 MB Download (91): Bio::TreeIO::svggraph Download

Added: February 11, 2010 | Visits: 1.030

DROD: King Dugans Dungeon DROD: King Dugans Dungeon is a puzzle adventure game for all ages. This is where Beethros delvings really got started. Go deep into King Dugans dungeon, solving puzzles and fighting monsters. The game is easy to learn, but difficult to complete. There are hundreds of rooms to explore and each... Platforms: *nix

License: Shareware Cost: $19.00 USD Size: 23.7 MB Download (98): DROD: King Dugans Dungeon Download

Added: October 24, 2010 | Visits: 1.529

Bio::Tools::Run::PiseApplication::fasta Bio::Tools::Run::PiseApplication::fasta is a Bioperl class for sequence database search. Parameters: fasta (Excl) Fasta program query (Sequence) Query sequence File pipe: seqfile seqtype (Excl) Is it a DNA or protein sequence (-n) protein_db (Excl) Protein Database nucleotid_db... Platforms: *nix

License: Freeware Size: 82.94 KB Download (101): Bio::Tools::Run::PiseApplication::fasta Download

Added: August 02, 2010 | Visits: 1.815

Bio::Tools::Run::PiseApplication::align2model Bio::Tools::Run::PiseApplication::align2model is a Bioperl class for align2model - create a multiple alignment of sequences to an existing model. Parameters: align2model (String) run (String) Run name db (Sequence) Sequences to align (-db) model_file (InFile) Model (-i) pipe:... Platforms: *nix

License: Freeware Size: 829.44 KB Download (95): Bio::Tools::Run::PiseApplication::align2model Download

Added: January 07, 2010 | Visits: 1.757

Bio::Tools::Run::PiseApplication::consensus Bio::Tools::Run::PiseApplication::consensus is a Perl module. Bioperl class for: CONSENSUS Identification of consensus patterns in unaligned DNA and protein sequences (Hertz, Stormo) References: G.Z. Hertz and G.D. Stormo. Identification of consensus patterns in unaligned DNA and protein... Platforms: *nix

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Added: October 23, 2010 | Visits: 2.094

Bio::Tools::Run::PiseApplication::charge Bio::Tools::Run::PiseApplication::charge is a Perl module. Bio::Tools::Run::PiseApplication::charge Bioperl class for: CHARGE Protein charge plot (EMBOSS) Parameters: (see also: http://bioweb.pasteur.fr/seqanal/interfaces/charge.html for available values): charge (String) init... Platforms: *nix

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Added: September 12, 2010 | Visits: 925

Bio::NEXUS::WeightSet Bio::NEXUS::WeightSet is a Perl module that represents column weights in alignment ( for each character). SYNOPSIS new Bio::NEXUS::WeightSet($name, @weights, $iswt); A module representing column weights in alignment (for each character) METHODS new Title : new Usage : $node = new... Platforms: *nix

License: Freeware Size: 153.6 KB Download (90): Bio::NEXUS::WeightSet Download

Added: August 02, 2010 | Visits: 904

Bio::NEXUS::HistoryBlock Bio::NEXUS::HistoryBlock is a Perl module that represents a HISTORY block of a NEXUS file. SYNOPSIS $block_object = new Bio::NEXUS::HistoryBlock(history, $block, $verbose); This is a class representing a history block in NEXUS file METHODS new Title : new Usage : block_object = new... Platforms: *nix

License: Freeware Size: 153.6 KB Download (99): Bio::NEXUS::HistoryBlock Download

Added: February 01, 2010 | Visits: 1.032

Bio::Ontology::Relationship Bio::Ontology::Relationship is a relationship for an ontology. SYNOPSIS $rel = Bio::Ontology::Relationship->new( -identifier => "16847", -subject_term => $subj, -object_term => $obj, -predicate_term => $pred ); This is a basic implementation of Bio::Ontology::RelationshipI. The... Platforms: *nix

License: Freeware Size: 4.7 MB Download (109): Bio::Ontology::Relationship Download

Added: July 21, 2010 | Visits: 729

Bio::Ontology::GOterm Bio::Ontology::GOterm is a representation of GO terms. SYNOPSIS $term = Bio::Ontology::GOterm->new ( -go_id => "GO:0016847", -name => "1-aminocyclopropane-1-carboxylate synthase", -definition => "Catalysis of ...", -is_obsolete => 0, -comment => "" ); $term->add_definition_references(... Platforms: *nix

License: Freeware Size: 4.7 MB Download (95): Bio::Ontology::GOterm Download

Added: September 10, 2010 | Visits: 879

Bio::ConnectDots::ConnectDots Bio::ConnectDots::ConnectDots is a top level class for connect-the-dots. SYNOPSIS use Bio::ConnectDots::DB; use Bio::ConnectDots::ConnectDots; my $db=new Bio::ConnectDots::DB(-database=>test, -host=>computername, -user=>usename, -password=>secret); my $cd=my $cd=new... Platforms: *nix

License: Freeware Size: 102.4 KB Download (98): Bio::ConnectDots::ConnectDots Download

Added: April 10, 2010 | Visits: 722

Bio::AnnotationCollectionI Bio::AnnotationCollectionI is a Perl interface for annotation collections. SYNOPSIS # get an AnnotationCollectionI somehow, eg $ac = $seq->annotation(); foreach $key ( $ac->get_all_annotation_keys() ) { @values = $ac->get_Annotations($key); foreach $value ( @values ) { # value is an... Platforms: *nix

License: Freeware Size: 4.7 MB Download (95): Bio::AnnotationCollectionI Download

Added: September 26, 2010 | Visits: 765

Bio::Seq Bio::Seq is a sequence object, with features. SYNOPSIS # This is the main sequence object in Bioperl # gets a sequence from a file $seqio = Bio::SeqIO->new( -format => embl , -file => myfile.dat); $seqobj = $seqio->next_seq(); # SeqIO can both read and write sequences; see Bio::SeqIO #... Platforms: *nix

License: Freeware Size: 4.7 MB Download (98): Bio::Seq Download

Added: April 21, 2010 | Visits: 992

Bio::PrimarySeqI Bio::PrimarySeqI is a Perl Interface definition for a Bio::PrimarySeq. SYNOPSIS # Bio::PrimarySeqI is the interface class for sequences. # If you are a newcomer to bioperl, you should # start with Bio::Seq documentation. This # documentation is mainly for developers using # Bioperl. #... Platforms: *nix

License: Freeware Size: 4.7 MB Download (92): Bio::PrimarySeqI Download

Added: September 18, 2010 | Visits: 1.884

Bio::Index::Swissprot Bio::Index::Swissprot is a Perl Interface for indexing (multiple) Swissprot .dat files (ie flat file swissprot format). SYNOPSIS # Complete code for making an index for several # Swissprot files use Bio::Index::Swissprot; use strict; my $Index_File_Name = shift; my $inx =... Platforms: *nix

License: Freeware Size: 4.7 MB Download (100): Bio::Index::Swissprot Download

Added: October 17, 2010 | Visits: 1.186

Bio::Tools::CodonTable Bio::Tools::CodonTable is a bioperl codon table object. SYNOPSIS # This is a read-only class for all known codon tables. The IDs are # the ones used by nucleotide sequence databases. All common IUPAC # ambiguity codes for DNA, RNA and animo acids are recognized. # to use use... Platforms: *nix

License: Freeware Size: 4.7 MB Download (127): Bio::Tools::CodonTable Download

Added: June 13, 2010 | Visits: 1.157

Bio::Map::CytoMap Bio::Map::CytoMap is a Bio::MapI compliant map implementation handling cytogenic bands. SYNOPSIS use Bio::Map::CytoMap; my $map = new Bio::Map::CytoMap(-name => human1, -species => $human); foreach my $marker ( @markers ) { # get a list of markers somewhere $map->add_element($marker); }... Platforms: *nix

License: Freeware Size: 4.7 MB Download (124): Bio::Map::CytoMap Download

Added: November 05, 2010 | Visits: 647

Bio::Biblio::Patent Bio::Biblio::Patent is a representation of a patent. SYNOPSIS $obj = new Bio::Biblio::Patent (-doc_number => 1-2-3-4-5); #--- OR --- $obj = new Bio::Biblio::Patent; $obj->doc_number (1-2-3-4-5); A storage object for a patent. See its place in the class hierarchy in... Platforms: *nix

License: Freeware Size: 4.7 MB Download (96): Bio::Biblio::Patent Download

Added: November 21, 2010 | Visits: 664

Bio::Ontology::Ontology Bio::Ontology::Ontology is a standard implementation of an Ontology. SYNOPSIS use Bio::Ontology::Ontology; # create ontology object my $ont = Bio::Ontology::Ontology->new(-name => "OBF"); # add terms, relationships ... my $bp = Bio::Ontology::Term->new(-name => "Bioperl"); my $obf =... Platforms: *nix

License: Freeware Size: 4.7 MB Download (92): Bio::Ontology::Ontology Download

Added: January 27, 2010 | Visits: 987

Bio::Factory::SeqAnalysisParserFactoryI Bio::Factory::SeqAnalysisParserFactoryI is a Perl interface describing objects capable of creating SeqAnalysisParserI compliant parsers. SYNOPSIS # initialize an object implementing this interface, e.g. $factory = Bio::Factory::SeqAnalysisParserFactory->new(); # obtain a parser object... Platforms: *nix

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