Analyze Dna Sequence
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
License: Freeware | Size: 12.06 MB | Download (50): Deep Network Analyzer (DNA) Download |
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
License: Freeware | Size: 9.61 MB | Download (53): FSA Download |
ICRPfinder finds or generates DNA patterns which can include restriction enzyme recognition sites in coding sequences without changing the translated protein sequence.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 91.95 KB | Download (52): ICRPfinder Download |
POSA (Perl Objects for Sequence Analysis) provides an easy-to-use perl interface to handling raw ABI sequence trace files. For example: fasta can be extracted, sequence contigs can be build and putative SNPs and SBE primers can be easily generated.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 3.65 MB | Download (45): Perl Objects for Sequence Analysis Download |
A fast and reliable tool, written in Java 5, for generating professional UML sequence diagrams from text. Supports actors, con-/destructors, threads, broadcasts, notes, and fragments. Can serve as a Javadoc taglet. Exports PDF, (E)PS, SVG, PNG, ...
Platforms: Windows, Mac, Linux
License: Freeware | Size: 2.33 MB | Download (56): Quick Sequence Diagram Editor Download |
TaxonDNA is a simple but extensible system for performing simple DNA (and other) sequence manipulations in Java. We hope to create a simple framework which can be quickly extended to create bioinformatics applications.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 380.94 KB | Download (58): TaxonDNA Download |
Permutations and combinations are often required in algorithms that do a complete search of the solution space. They are typically rather large so it's best not to compute them entirely but better to lazily generate them.This script uses Python generators to create appropriate generator objects,...
Platforms: Windows, Mac, *nix, Python, BSD Solaris
License: Freeware | Download (55): Generator for sequence operations Download |
It can be used to study and analyze behavioral neuroscience experiments.It allows an easy creation of trial lists factorial designs including various constraints as run length, factor levels or trial types. Requirements: - MATLAB 7.8 or higher
Platforms: Windows, Mac, *nix, Matlab, BSD Solaris
License: Freeware | Download (56): Sequence Generator Download |
Generators, introduced in Python 2.2, can be used to work with infinite sets. This script is a simple example of a generator that creates the Fibonacci sequence.Running this produces the following result:c:python22>python fib.py1 1 2 3 5 8 13 21 34
Platforms: Windows, Mac, *nix, Python, BSD Solaris
License: Freeware | Download (58): Fibonacci sequence using generators Download |
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
License: Freeware | Size: 4.35 MB | Download (46): DNA MicroArray Image Processing Case Study Download |
Please always check http://www.rotman-baycrest.on.ca/~jimmy/NIfTI for detail descriptions and latest updates.If you are confused by the Left / Right of an ANALYZE image, you can consult http://www.rotman-baycrest.on.ca/~jimmy/UseANALYZE.htmYou may also want to read...
Platforms: Matlab
License: Freeware | Size: 92.16 KB | Download (50): Tools for NIfTI and ANALYZE image Download |
Maximum length sequence assuming distinctvalues = baseVal^powerVal-1 [ms]=mseqSearch(powerVal,baseVal) OUTPUT: ms: generated maximum length sequence, of length basisVal^powerVal-1 such that all values occur with equal frequency=basisVal except zero, which occurs basisVal-1 times INPUT: baseVal:...
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (48): m-sequence generation program using a search algorithm Download |
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
License: Freeware | Size: 10 KB | Download (45): GUI for Basic Local Alignment Search Tool (BLAST) Download |
BrainMaps Analyze is a powerful tool for applying image analysis routines to massive, high resolution brain image data at BrainMaps.org (or elsewhere)The thumbnail image is a screenshot of BrainMaps Analyze (Matlab version) performing granulometry analysis on this image. The top left image is a...
Platforms: Matlab
License: Freeware | Size: 1024 KB | Download (43): BrainMaps Analyze Download |
SPtrack is a GUI (Graphical User Interface) based program written in Matlab which is used for tracking single particles and finding Diffusion properties. It works on Matlab 6 and above platforms and requires the Image Processing Toolbox and the Curve fitting Toolbox (optional). The program...
Platforms: Matlab
License: Freeware | Size: 819.2 KB | Download (48): SPtrack Download |
Sequence Generator (file ID #24620) has been renamed to CORE - Constraint Randomization Environment. Interface and code structure of v0.91 are explained in this manual.Current development concentrates on these topics:- Performance related issues- Bug fixes (3 known issues)- Improved constraint...
Platforms: Matlab
License: Freeware | Size: 614.4 KB | Download (44): Sequence Generator / CORE Manual (v0.91) Download |
Swiss-PdbViewer (aka DeepView) is an application that provides a user friendly interface allowing to analyze several proteins at the same time. The proteins can be superimposed in order to deduce structural alignments and compare their active sites or any other relevant parts. Amino acid...
Platforms: Mac
License: Freeware | Size: 13.36 MB | Download (42): DeepView Download |
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
License: Freeware | Size: 1.47 MB | Download (35): Stretching DNA Download |
JMotifFinder is a small graphical utility I wrote to quickly find DNA Motifs such as Primers in huge EMBL Files. If you load an EMBL file containing exon and mRNA information into JMotifFinder, it will graphically display the location of the exons and mRNA within the source sequence. You can...
Platforms: Mac
License: Freeware | Size: 3.19 MB | Download (36): Motif Finder Download |
FSA is a probabilistic multiple sequence alignment algorithm which uses a "distance-based" approach to aligning homologous protein, RNA or DNA sequences.
Platforms: *nix
License: Freeware | Size: 9.61 MB | Download (39): FSA For Linux Download |