Acid Sequence
The Nucleic Acid MW widget allows to calculate the molecular weight of a nucleic acid sequence.
Platforms: Mac
License: Freeware | Download (104): Nucleic Acid MW widget Download |
The FastPCR software was developed to be an integrated tools environment that provides comprehensive facilities for designing primers for most PCR applications including standard, long distance, inverse, real-time, multiplex, unique and group-specific; overlap extension PCR (OE-PCR)...
Platforms: Windows, XP, 2003, Windows Vista, XPX64, 7, 7x64
License: Freeware | Download (466): FastPCR Professional Download |
ProDy is a free and open-source Python package for analyzing protein structural dynamics. It allows for quantitative analysis of heterogeneous experimental structural datasets and comparison with theoretically predicted conformational dynamics. The input for ProDy is the atomic coordinates of...
Platforms: *nix
License: Freeware | Size: 727.04 KB | Download (36): ProDy for Linux Download |
GENtle is a software for DNA and amino acid editing, database management, plasmid maps, restriction and ligation, alignments, sequencer data import, calculators, gel image display, PCR, and much more.
It is free software under GPLv2+.
Requested Features:
- Import of Vector NTI...
Platforms: Mac
License: Freeware | Size: 3.7 MB | Download (602): GENtle for Mac OS X Download |
GENtle is a software for DNA and amino acid editing, database management, plasmid maps, restriction and ligation, alignments, sequencer data import, calculators, gel image display, PCR, and much more.
It is free software under GPLv2+.
Requested Features:
- Import of Vector NTI...
Platforms: Linux
License: Freeware | Size: 1.7 MB | Download (529): GENtle for Linux Download |
GENtle is a software for DNA and amino acid editing, database management, plasmid maps, restriction and ligation, alignments, sequencer data import, calculators, gel image display, PCR, and much more.
It is free software under GPLv2+.
Requested Features:
- Import of Vector NTI...
Platforms: Windows
License: Freeware | Size: 2.7 MB | Download (512): GENtle for Windows Download |
The Basic melting temperature widget allows to calculate the melting temperature of a nucleic acid sequence.
Platforms: Mac
License: Freeware | Size: 96 KB | Download (109): Basic melting temperature widget Download |
OligoLocator is a simple, Java based application designed to identify the position of oligonucleotides within nucleic acid sequences with varying degrees of mismatch between the two.
Platforms: Windows
License: Freeware | Size: 1.6 MB | Download (56): OligoLocator Download |
nebseq is a Python module for basic biological sequence manipulations. Import as usual >>> import nebseq Reverse complements The only note here is that revcomp does not check the input sequence to see if it looks like DNA or RNA. >>> nebseq.revcomp('ACGT') 'ACGT' >>>...
Platforms: *nix
License: Freeware | Size: 10.24 KB | Download (37): nebseq Download |
This contest concerns a very simplified two-dimensional version of the protein folding problem. Given the amino acid sequence of a simplified protein, your job is to determine a final "optimally folded" configuration. Each potential arrangement of the protein sequence is associated with an energy...
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (40): MATLAB Contest Protein Download |
Bio::Graphics::Glyph::cds module contains the "cds" glyph. SYNOPSIS See L< Bio::Graphics::Panel > and L< Bio::Graphics::Glyph >. This glyph draws features that are associated with a protein coding region. At high magnifications, draws a series of boxes that are color-coded to indicate the...
Platforms: *nix
License: Freeware | Size: 4.7 MB | Download (95): Bio::Graphics::Glyph::cds Download |
Structure is a screensaver for Mac OS X that draws on the National Center for Biotechnology Information's protein databases to display beautiful 3D protein structures on your screen. It ships with about ten sample structures and via the Internet has seamless access to a database of tens of...
Platforms: Mac
License: Freeware | Size: 4.4 MB | Download (95): Structure Download |
MPEx is a small, easy to use application designed to help you explore the topology and other features of membrane proteins by means of hydropathy plots based upon thermodynamic and biological principles.
The program is based on sliding-window analysis that represents an amino acid sequence as a...
Platforms: Windows
License: Freeware | Download (483): MPEx Download |
The sixth MATLAB Programming Contest, Protein, will run from November 6-13, 2002.This contest concerns a very simplified two-dimensional version of the protein folding problem. Given the amino acid sequence of a simplified protein, your job is to determine a final "optimally folded"...
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (41): MATLAB Contest - Protein Download |
Domino on Acid project is a weird colorful solitaire variant of dominoes that visualizes natural deduction. Superficially, Dominoes on Acid is a solitaire variant of Dominoes with weird colorful tiles (and this view is enough to play the game). But on a deeper level it is a GUI for natural...
Platforms: *nix
License: Freeware | Size: 368.64 KB | Download (104): Domino on Acid Download |
UML::Sequence is a Perl module to render UML sequence diagrams, often by running the code. SYNOPSIS use UML::Sequence; my $tree = UML::Sequence->new(@methods, @outline, &parse_method); print $tree->build_xml_sequence(Title); To use this package, or see how to use it, see genericseq.pl...
Platforms: *nix
License: Freeware | Size: 122.88 KB | Download (159): UML::Sequence Download |
UML::Sequence::JavaSeq is a Perl module for use with genericseq.pl script, works on compiled Java programs. SYNOPSIS genericseq.pl UML::Sequence::JavaSeq Hello.methods Hello > Hello.xml seq2svg.pl Hello.xml > Hello.svg OR genericseq.pl UML::Sequence::JavaSeq Hello.methods Hello |...
Platforms: *nix
License: Freeware | Size: 122.88 KB | Download (92): UML::Sequence::JavaSeq Download |
Chart::Sequence is a sequence Perl class. SYNOPSIS use Chart::Sequence; my $s = Chart::Sequence->new( Nodes => [qw( A B C )], Messages => [ [ A => B => "Message 1" ], [ B => A => "Ack 1" ], [ B => C => "Message 2" ], ], ); # or # my $s = Chart::Sequence->new( SeqMLInput =>...
Platforms: *nix
License: Freeware | Size: 15.36 KB | Download (105): Chart::Sequence Download |
Sequence Analysis project is a collage of coding projects which I have written over the past several years for various clients in my work as a bioinformatics consultant. These clients have graciously allowed me to release these works into the public domain as freeware for Macintosh OS X in...
Platforms: *nix
License: Freeware | Size: 2.3 MB | Download (122): Sequence Analysis Download |
Short Sequence Location Mapper loads the sequences, then aligns them and finally graphs and tables can be generated for one or more datasets at the same time.
SSLM typically works with a BLAST data output file of short Solexa reads mapped to RNA subjects (for example pre-miRNA sequences).
The...
Platforms: Windows
License: Freeware | Download (471): Short Sequence Location Mapper Download |