Dna Sequence Alignment Software

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.

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 =...

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


Platforms: *nix

UGENE is a comprehensive genome analysis suite that features multiple sequence alignment and a complex HMM builder and search module. for WindowsAll


Platforms: Windows

A fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin) for Unix, Linux, MacOSX and MS Windows.


Platforms: Mac

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

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

NeoBio project consists of Bioinformatics algorithms in Java. What algorithms? The current version consists mainly of (pairwise) sequence alignment algorithms such as the classical dynamic programming methods of Needleman & Wunsch (global alignment) and Smith & Waterman (local alignment)....


Platforms: *nix

Global optimal sequence alignment using the Needleman-Wunsch algorithm. Aligns DNA, RNA, protein sequence and more! See our sister project local alignment using Smith-Waterman: http://sourceforge.net/projects/smithwaterman/


Platforms: Mac, BSD, Linux

NGSView is a generally applicable, flexible and extensible next-generation sequence alignment editor. The software allows for visualization and manipulation of millions of sequences simultaneously on a desktop computer, through a graphical interface.


Platforms: *nix

BVTech Plasmid is DNA plasmid drawing software that you can use to draw circle or linear plasmid maps with double strands or a single strand. You can label the plasmid with genes and restriction sites in different colors, text, and styles. Plasmid map can be highly customized. You can arrange...


Platforms: Windows

BVTech Plasmid is DNA plasmid drawing software that you can use to draw circle or linear plasmid maps with double strands or a single strand. You can label the plasmid with genes and restriction sites in different colors, text, and styles. Plasmid map can be highly customized. You can arrange...


Platforms: Windows

4Peaks is a program that helps molecular biologists to visualize and edit their DNA sequence files. At last there is a decent solution for analyzing trace files on the Mac OS X platform, taking another step away from slow and non-native programs from the Mac OS 9 period. Also, 4Peaks supports...


Platforms: Mac

An automatically-updating library of genomic and genetic data; that provides a fully integrated, visually-advanced toolset for - Sequence alignment and phylogenetics - Sequence analysis, Contig assembly, - primers, restriction analysis - BLAST. Protein structure viewing, NCBI, UniProt, Pubmed...


Platforms: Mac

A set of programs for multiple sequence alignment and analysis. The programs use an expandable user interface which allows the addition of external analysis functions without any rewriting of code. The system supports several data types, nucleic and amino acid sequences, text, and masking...


Platforms: Mac

BACContigEditor is a simple sequence alignment editing tool, written in Java. It is originally developed for finishing BAC shotgun sequencing projects, but the program could be easily extended to the whole genome project.


Platforms: Windows, Mac, Linux

JAligner is an open source Java implementation of the dynamic programming algorithm Smith-Waterman with Gotoh's improvement for biological local pairwise sequence alignment with the affine gap penalty model.


Platforms: Windows, Mac, Linux

A tool to compare two Protein Sequences and show similarities with the help of dotplot.


Platforms: Windows, Mac, Linux

Sequence studio main package provides classes and interfaces for various kinds of sequence alignment. Differently from regular expressions it computes similarity with two initially unknown strings. Project page provides code generating applet.


Platforms: Windows, Mac, Linux