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Jukes for Mac/Linux/Solaris 4.1.2.42
Jukes was created for the serious MP3 user. more>> Jukes was created for the serious MP3 user. This program was created for people who rip full CDs or possibly their entire CD collection to their hard drive. Jukes allows you to have all of your CDs at your fingertips and play them like a real jukebox. Perfect for DJs, whether in your house or for parties or whatever, spin all of your favorite tunes anytime you want. No more loading the files in to play them and removing them to add more to the list, now all of your CDs are at your disposal!
Cross platform - works on Linux, Solaris, MacOSX, Windows.
Full support of ID3 v2.4 MP3 tags.
Full support of MP3, OGG Vorbis, FLAC, Monkey Audio APE, and SPEEX
Automatic creation of database if not found. No more proprietary use of MS Access.
Ability to display/sort your discs and tracks anyway you want. Lets you order discs by year, bitrate, name etc. Tracks by track number, or bitrate, or alphabetically.
Highlights any disc or tracks added within the last XX days. This allows new editions to stand out in large collections.
Filter by Genre, Years, Bitrates and most recently added albums
Disc Cleaner to remove discs that no longer exist in storage from the database. Useful for people that use IPods or Archos Jukeboxes as their storage.
Inline editing of artists, discs, tracks rather than the old click to open a new window metaphor.
Ability to import and export preferences.
File renaming based on a user defined regular expression. So you can name your files 01-Track1.mp3 or 01 - Track1 - 128kbps.mp3 or Track1 - 01.mp3
Web Search to retrieve disc cover, year, track names, and artist and disc name using Amazon.com Web Service.
Advanced search to find tracks. Fuzzy text search as well as by year, genre, bitrate.
Ability to export search results as CSV files for ad-hoc reporting.
Tray icon for easy access, single click pause/play, mouse wheel click to advance next song.
WINDOWS ONLY: Ability to listen to Intellitype commands Pause Play Stop found o<<less
Download (14.62MB)
Added: 2009-04-26 License: Freeware Price:
180 downloads
Bio::Tree::DistanceFactory 1.5.2_102
Bio::Tree::DistanceFactory is a Perl module to construct a tree using distance based methods. more>>
Bio::Tree::DistanceFactory is a Perl module to construct a tree using distance based methods.
SYNOPSIS
use Bio::Tree::DistanceFactory;
use Bio::AlignIO;
use Bio::Align::DNAStatistics;
my $tfactory = Bio::Tree::DistanceFactory->new(-method => "NJ");
my $stats = Bio::Align::DNAStatistics->new();
my $alnin = Bio::AlignIO->new(-format => clustalw,
-file => file.aln);
my $aln = $alnin->next_aln;
# Of course matrix can come from a different place
# like PHYLIP if you prefer, Bio::Matrix::IO should be able
# to parse many things
my $jcmatrix = $stats->distance(-align => $aln,
-method => Jukes-Cantor);
my $tree = $tfactory->make_tree($jcmatrix);
This is a factory which will construct a phylogenetic tree based on the pairwise sequence distances for a set of sequences. Currently UPGMA (Sokal and Michener 1958) and NJ (Saitou and Nei 1987) tree construction methods are implemented.
<<lessSYNOPSIS
use Bio::Tree::DistanceFactory;
use Bio::AlignIO;
use Bio::Align::DNAStatistics;
my $tfactory = Bio::Tree::DistanceFactory->new(-method => "NJ");
my $stats = Bio::Align::DNAStatistics->new();
my $alnin = Bio::AlignIO->new(-format => clustalw,
-file => file.aln);
my $aln = $alnin->next_aln;
# Of course matrix can come from a different place
# like PHYLIP if you prefer, Bio::Matrix::IO should be able
# to parse many things
my $jcmatrix = $stats->distance(-align => $aln,
-method => Jukes-Cantor);
my $tree = $tfactory->make_tree($jcmatrix);
This is a factory which will construct a phylogenetic tree based on the pairwise sequence distances for a set of sequences. Currently UPGMA (Sokal and Michener 1958) and NJ (Saitou and Nei 1987) tree construction methods are implemented.
Download (5.6MB)
Added: 2007-06-20 License: Perl Artistic License Price:
856 downloads
Bio::Tools::Run::PiseApplication::consensus 1.4
Bio::Tools::Run::PiseApplication::consensus is a Perl module. more>>
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 sequences: a large-deviation statistical basis for penalizing gaps. In: Proceedings of the Third International Conference on Bioinformatics and Genome Research (H.A. Lim, and C.R. Cantor, editors). World Scientific Publishing Co., Ltd. Singapore, 1995. pages 201--216.
Parameters:
(see also:
http://bioweb.pasteur.fr/seqanal/interfaces/consensus.html
for available values):
consensus (Excl)
Program to run
sequence (Sequence)
Sequences file (-f)
pipe: seqsfile
width (Integer)
Width of pattern (consensus only) (-L)
out (String)
consensus_matrix (String)
complement (Excl)
Complement of nucleic acid sequences (-c)
ascii_alphabet (InFile)
Alphabet and normalization information (if not DNA) (-a)
prior (Switch)
Use the designated prior probabilities of the letters to override the observed frequencies (-d)
dna (Switch)
Alphabet and normalization information for DNA
protein (Switch)
Alphabet and normalization information for protein
queue (Integer)
Maximum number of matrices to save between cycles of the program -- ie: queue size (-q)
standard_deviation (Float)
Number of standard deviations to lower the information content at each position before identifying information peaks (mandatory for wconsensus) (-s)
progeny (Excl)
Save the top progeny matrices (-pr1)
linearly (Switch)
Seed with the first sequence and proceed linearly through the list (-l)
max_cycle_nb (Integer)
Maximum repeat of the matrix building cycle (-n or -N)
max_cycle (Excl)
How many words per matrix for each sequence to contribute (-n or -N)
distance (Integer)
Minimum distance between the starting points of words within the same matrix pattern (-m)
terminate (Integer)
Terminate the program this number of cycles after the current most significant alignment is identified (-t)
terminal_gap (Excl)
Permit terminal gaps (-pg) (wconsensus only)
top_matrices (Integer)
Number of top matrices to print (-pt)
final_matrices (Integer)
Number of final matrices to print (-pf)
<<lessBioperl 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 sequences: a large-deviation statistical basis for penalizing gaps. In: Proceedings of the Third International Conference on Bioinformatics and Genome Research (H.A. Lim, and C.R. Cantor, editors). World Scientific Publishing Co., Ltd. Singapore, 1995. pages 201--216.
Parameters:
(see also:
http://bioweb.pasteur.fr/seqanal/interfaces/consensus.html
for available values):
consensus (Excl)
Program to run
sequence (Sequence)
Sequences file (-f)
pipe: seqsfile
width (Integer)
Width of pattern (consensus only) (-L)
out (String)
consensus_matrix (String)
complement (Excl)
Complement of nucleic acid sequences (-c)
ascii_alphabet (InFile)
Alphabet and normalization information (if not DNA) (-a)
prior (Switch)
Use the designated prior probabilities of the letters to override the observed frequencies (-d)
dna (Switch)
Alphabet and normalization information for DNA
protein (Switch)
Alphabet and normalization information for protein
queue (Integer)
Maximum number of matrices to save between cycles of the program -- ie: queue size (-q)
standard_deviation (Float)
Number of standard deviations to lower the information content at each position before identifying information peaks (mandatory for wconsensus) (-s)
progeny (Excl)
Save the top progeny matrices (-pr1)
linearly (Switch)
Seed with the first sequence and proceed linearly through the list (-l)
max_cycle_nb (Integer)
Maximum repeat of the matrix building cycle (-n or -N)
max_cycle (Excl)
How many words per matrix for each sequence to contribute (-n or -N)
distance (Integer)
Minimum distance between the starting points of words within the same matrix pattern (-m)
terminate (Integer)
Terminate the program this number of cycles after the current most significant alignment is identified (-t)
terminal_gap (Excl)
Permit terminal gaps (-pg) (wconsensus only)
top_matrices (Integer)
Number of top matrices to print (-pt)
final_matrices (Integer)
Number of final matrices to print (-pf)
Download (0.81MB)
Added: 2006-10-10 License: Perl Artistic License Price:
1109 downloads
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