Dna Alignment

Aorta project is a load-balancing clustered P2P application. It executes Tasklets (which have the ability to split themselves into sub tasks that can be executed in pararell). A typical cluster contains of a LAN with 1-256 computers, each one running aorta. A Tasklet can be of any type... Platforms: *nix

Bio::Graphics::Glyph::alignment is the "alignment" glyph. SYNOPSIS See L< Bio::Graphics::Panel > and L< Bio::Graphics::Glyph >. This is identical to the "graded_segments" glyph, and is used for drawing features that consist of discontinuous segments. The color intensity of each segment is... Platforms: *nix

This 30 days fully functional demo of CLC DNA Workbench provides a wide range of advanced DNA sequence analyses, and is based on the same user-friendly and integrated software environment as CLC Free Workbench. Some analyses are: - Assembly of DNA sequencing data - Graphically and... Platforms: Mac

JBoss DNA is a repository and set of tools that make it easy to capture, version, analyze, and understand the fundamental building blocks of information.As models, service and process definitions, schemas, source code, and other artifacts are added to the repository, JBoss DNA "sequences" the... Platforms: Java

This collection of functions is used to clean the alignment of m-code. It arranges all programming constructs in an easily readable manner. Platforms: Matlab

Alignment API is a development tool that allows various ontology matchers to share the same format and interface for accessing matching results. Using ontologies is the privileged way to achieve interoperability among heterogeneous systems within the Semantic web. However, as the ontologies... Platforms: *nix

Algorithm::NeedlemanWunsch is a sequence alignment with configurable scoring. SYNOPSIS use Algorithm::NeedlemanWunsch; sub score_sub { if (!@_) { return -2; # gap penalty } return ($_[0] eq $_[1]) ? 1 : -1; } my $matcher = Algorithm::NeedlemanWunsch->new(&score_sub); my $score =... Platforms: *nix

Wild-DNA Slide Show: simple picture slide show using pixel shaders 2.0 to display your pictures with cool effects. Platforms: Windows

Wild-DNA PortaLaunch: simple popup menu hidden in a systray icon to launch portable apps. In xml customization for the popup menu, and can launch applications without full path. Icons in menu can be used from libraries (exe, dll...) or bitmaps (png, jpg...) Platforms: Windows, Other

DNA is an open, flexible and extensible deep network analyzer software server and software architecture for gathering and analyzing network packets, network sessions and applications protocols, passively off enterprise class networks. Platforms: Windows, Mac, Linux

DNA Replicator is a graphical tool (written in java) that compute the complementary sequence from an input DNA sequence. It's a really easy used application. Platforms: Windows, Mac, Linux

FSA is a probabilistic multiple sequence alignment algorithm which uses a 'distance-based' approach to aligning homologous protein, RNA or DNA sequences. Platforms: Mac, BSD, Linux

In one type of gene expression analysis, fluorescently tagged messenger RNA from different cells are hybridized to a microscopic array of thousands of complimentary DNA spots that correspond to different genes. Illuminated spots emit different color light, indicating which genes are expressed... Platforms: Matlab

NCBI has an implementation of BLAST algorithm on their website at www.ncbi.nlm.nih.gov/BLAST, which is good if you want to query short DNA or protein sequence against various sequence databases. The problem arises when large sequences need to be BLAST'ed against a sequence database or against... Platforms: Matlab

Explore stretching just a single strand of DNA using optical tweezers or fluid flow. Experiment with the forces involved and measure the relationship between the stretched DNA length and the force required to keep it stretched. Is DNA more like a rope or like a spring? Platforms: Mac

FSA is a probabilistic multiple sequence alignment algorithm which uses a "distance-based" approach to aligning homologous protein, RNA or DNA sequences. Platforms: *nix

MUMmerGPU is a high-throughput DNA sequence alignment program that runs on nVidia G80-class GPUs. It aligns sequences in parallel on the video card to accelerate the widely used serial CPU program MUMmer. Platforms: *nix

Bio::Tools::AlignFactory is a base object for alignment factories. SYNOPSIS You wont be using this as an object, but using a dervied class like Bio::Tools::pSW Holds common Alignment Factory attributes in place. Platforms: *nix

Bio::Restriction::Enzyme is a single restriction endonuclease (cuts DNA at specific locations). SYNOPSIS # set up a single restriction enzyme. This contains lots of # information about the enzyme that is generally parsed from a # rebase file and can then be read back use... Platforms: *nix

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