Multiple Sequence Alignment

BlastViewer provides an interactive graphical user interface for the analysis of the reports produced by the BLAST sequence database search system. BlastViewer is an easy to use software designed for everyday biological sequence analysis relying on BLAST. It allows an easy visualisation and...

Bio::AlignIO::bl2seq is a bl2seq sequence input/output stream. SYNOPSIS Do not use this module directly. Use it via the Bio::AlignIO class, as in: use Bio::AlignIO; $in = Bio::AlignIO->new(-file => "inputfilename" , -format => bl2seq); $aln = $in->next_aln(); This object can create...

Geneious is a useful, unique and easy-to-use software system which has been designed to greatly speed up and simplify the research in molecular biology and biochemistry. Geneious is a cross-platform research engine for the retrieval, organization and analysis of biomolecular data that allows...


Platforms: Windows

Geneious is a useful, unique and easy-to-use software system which has been designed to greatly speed up and simplify the research in molecular biology and biochemistry. Geneious is a cross-platform research engine for the retrieval, organization and analysis of biomolecular data that allows...


Platforms: Windows

Genovar is a stand-alone software built using the Java programming language in order to detect unknown genomic variants. The program can also analyze SNP-related copy number variant regions, and comprehensively visualize genomic data such as array CGH and sequence alignments results.


Platforms: Windows

A bioinformatics program for advanced RNA sequence analysis. All analyses are fully integrated in one single, user-friendly, and intuitive software application. Some analyses are: - Secondary structure prediction - Graphical view and editing of secondary structure - Tabular view of structures...


Platforms: Mac

MayaChemTools is a collection of command line Perl scripts to work with SD files, CSV/TSV text files, Sequence/Alignments files, PDB files, and databases: - splitting, joining, merging, and sorting SD and text files; merging text files into SD files; splitting SD files into MDL MOL files; -...


Platforms: Windows, Mac, *nix, Perl, BSD Solaris

Welcome to the SRMA home page. SRMA is a short read micro re-aligner for next-generation high throughput sequencing data. Sequence alignment algorithms examine each read independently. When indels occur towards the ends of reads, the alignment can lead to false SNPs as well as improperly placed...


Platforms: Mac

CILib comes from Computational Intelligence Library. CILib is a collaborative research framework for developing Computational Intelligence algorithms in the fields of swarm intelligence, evolutionary computing, neural networks, artificial immune systems, and fuzzy logic. Whats New in This...


Platforms: *nix

Geneious Basic is your personalized library of genomic and genetic data; that provides a fully integrated, visually advanced toolset for:Sequence alignment and phylogeneticsSequence analysisBLAST, Protein structure viewing, NCBI, EMBL, Pubmed auto-find & moreAPI for creating your own plugins...


Platforms: Mac

A modular software framework for phylogenetic analysis and visualization. Existing phylogenetic software can be split into two groups. Algorithmic packages that provide computational methods for a specific problem, and visualization tools to analyze results. Many algorithmic tools lack in...


Platforms: Mac

3D Genome Tuner draws circular genome map and enables viewing multi-genomes in 3D context. It also provides genome analysis and sequence alignment, making it a powerful tool in genome studies and demonstrations.


Platforms: Windows, Mac, Linux

Bio::Prospect:: is a Perl API to thePROSPECT threading application. The modules provide for programexecution, results parsing, multiple sequence alignments inferred frompairwise sequence-structure alignments, and rudimentary homology models.


Platforms: Windows, Mac, Linux

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

This module allows signing up (as per the Signup module) for multiple nodes at once. At the moment the collection/sequence of nodes to sign up for can be specified only by the Node Repeat module (which is required), and it will only signup for the currently viewed and future occurrences of a...


Platforms: PHP

Creates a software environment enabling users to make basic bioinformatics analyses and smooth data management, combined with excellent graphical viewing and output options. Some bioinformatics features are: - GenBank searching and viewing (linear and circular views) - Multiple alignment of...


Platforms: Mac

CLC Sequence Viewer creates a software environment enabling users to make a large number of bioinformatics analyses, combined with smooth data management, and excellent graphical viewing and output options. Bioinformatics features in CLC Sequence Viewer Multiple alignment of DNA, RNA, and...


Platforms: Windows

With the help of this program, you can quickly find and replace text, correct html code and hyperlinks in multiple file, add new links or re-format the design of the entire site. Software extremely useful in editing of multiple html and text files. When you are developing or supporting a...


Platforms: Windows

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

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