Ncbi Pubmed
A fast, efficient search tool for scientists, medical professionals and students who rely on the ability to quickly access the millions of research papers indexed in PubMed. By combining a simple, efficient user interface with fast access to the PubMed database, PubSearch lets you concentrate on...
Platforms: Mac
License: Freeware | Size: 112.64 KB | Download (44): PubSearch for Mac OS Download |
The CL!Psci Scientific Search Engine is a superfast and efficient, free Google-like software, designed to meet the specialized and intensive, web-based information need of the researcher scientist. * Customize a menu of your most commonly used scientific search engines * Right-click on a word or...
Platforms: Windows
License: Freeware | Size: 1.53 MB | Download (446): Cl!psci Download |
CisPlusFinder predicts cis-regulatory modules based on perfect local ungapped sequences using comparative sequence data from multiple organisms. An overview of the CisPlusFinder can be found in the flowchart.tif file and is described in the following publication:
Pierstorff, N., C.M. Bergman &...
Platforms: Mac, BSD
License: Freeware | Size: 1.15 MB | Download (44): CisPlusFinder Download |
Perl Entrez Gene Parser project provides Perl parsers for NCBI's Entrez Gene based on regular expression, Parse::RecDescent, Parse::Yapp and Perl-byacc. Some can parse human genome annotations in minutes. Documentation and user guides are provided.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 35.3 KB | Download (45): Entrez Gene Parser in Perl Download |
JAMBLAST: Java Application Manager for the ncbi BLAST results. It is a graphic application that allow the user to display, filter, sort, import/export, store/manage BLAST results produced with the NOBLAST (https://sourceforge.net/projects/noblast).
Platforms: Windows, Mac, Linux
License: Freeware | Size: 4.29 MB | Download (44): jamblast Download |
ORFer reads the NCBI GenBank XML sequence format and extracts open reading frames for proteins. Sequences can be requested by GI or accession number. ORFprimer is an extended software package for high throughput PCR primer design for biological sequences
Platforms: Windows, Mac, BSD, Solaris, Linux
License: Freeware | Size: 240.93 KB | Download (47): ORFprimer - primer design for ORFs Download |
MyPHPBib is a web application for managing bibliographic references. It can import references in several formats (e.g., EndNote and RIS), as well as importing references directly from PubMed. MyPHPBib is written in PHP and uses MySQL as the database. MyPHPBib requires MySQL, PHP, Perl 5, and...
Platforms: Windows, Mac, *nix, PHP, BSD Solaris
License: Freeware | Download (53): MyPHPBib Download |
BioMail is a small web-based application for medical researchers, biologists, and anyone who wants to know the latest information about a disease or a biological phenomenon. It is written to automate searching for recent scientific papers in the PubMed Medline database.Periodically BioMail does a...
Platforms: *nix, Perl, BSD
License: Freeware | Download (71): BioMail Download |
MyPHPBib is a web application for managing bibliographic references.It can import references in several formats (e.g., EndNote and RIS), as well as importing references directly from PubMed. MyPHPBib is written in PHP and uses MySQL as the database.MyPHPBib requires MySQL, PHP, Perl 5, and...
Platforms: PHP
License: Freeware | Size: 450.56 KB | Download (41): MyPHPBib for Scripts Download |
Sequin is a stand-alone software tool developed by the NCBI for submitting and updating entries to the GenBank sequence database. It is capable of handling simple submissions that contain a single short mRNA sequence, and complex submissions containing long sequences, multiple annotations, gapped...
Platforms: Mac
License: Freeware | Size: 63.48 MB | Download (34): Sequin Download |
NCBI Genome Workbench is an integrated application for viewing and analyzing sequence data. With Genome Workbench, you can view data in publically available sequence databases at NCBI, and mix this data with your own private data. Genome Workbench can display sequence data in many ways,...
Platforms: Mac
License: Freeware | Size: 35.54 MB | Download (34): Genome Workbench Download |
NCBI recently started a biological image search feature (http://www.ncbi.nlm.nih.gov/images). This extension adds a figure summary in these figures. The summaries are derived from UWM's FigureSearch (http://figuresearch.askhermes.org). Note that the summary appears only for figures in open access...
Platforms: *nix
License: Freeware | Size: 71.68 KB | Download (33): figuresummarizer Download |
ToBiX is a Morphix-based Linux live CD containing a range of specialist applications for bioinformatics. With this distrubution you just boot from the CD and you have a fully functional LINUX OS distribution with open source applications. Besides using some RAM, ToBiX doesnt touch the host...
Platforms: *nix
License: Freeware | Size: 457.2 MB | Download (91): ToBiX Download |
Bio::Tools::Run::TribeMCL is a method for clustering proteins into related groups, which are termed protein families. SYNOPSIS use Bio::Tools::Run::TribeMCL; use Bio::SearchIO; # 3 methods to input the blast results # straight forward raw blast output (NCBI or WU-BLAST) my @params =...
Platforms: *nix
License: Freeware | Size: 829.44 KB | Download (213): Bio::Tools::Run::TribeMCL Download |
DNALinux is a Linux distribution with bioinformatics software pre-installed. We believe that this distro fills an empty niche. Specialized biotech software usually is released as source code only and its not packaged for easy installation on "mainstream" Linux. Most scientific software is...
Platforms: *nix
License: Freeware | Size: 511 MB | Download (110): DNALinux Download |
BioBrew Linux is an open source Linux distribution that is enhanced for life scientists. It is customized for cluster and bioinformatics computing. It automates cluster installation, includes all the HPC software a cluster enthusiast needs, and contains popular bioinformatics applications....
Platforms: *nix
License: Freeware | Size: 1.93 GB | Download (114): BioBrew Linux Download |
Bio::Tools::CodonTable is a bioperl codon table object. SYNOPSIS # This is a read-only class for all known codon tables. The IDs are # the ones used by nucleotide sequence databases. All common IUPAC # ambiguity codes for DNA, RNA and animo acids are recognized. # to use use...
Platforms: *nix
License: Freeware | Size: 4.7 MB | Download (127): Bio::Tools::CodonTable Download |
Phplabware project is a web-driven database management system. Phplabware runs on a server and is accessed through a web browser. Databases can be designed within a web-interface. Data-entry takes place in forms, which can be altered using phplabwares plugin mechanism. Search results can be...
Platforms: *nix
License: Freeware | Size: 645.12 KB | Download (86): PhpLabware Download |
Vigyaan is an electronic workbench for bioinformatics, computational biology and computational chemistry. It has been designed to meet the needs of both beginners and experts. VigyaanCD is a live Linux CD containing all the required software to boot the computer with ready to use modeling...
Platforms: *nix
License: Freeware | Size: 638 MB | Download (106): Vigyaan Download |
Bio::GMOD::Admin::Monitor::blat is a Perl module that can monitor a BLAT server. SYNOPSIS Check the installed version of a MOD use Bio::GMOD::Util::CheckVersions.pm my $gmod = Bio::GMOD::Util::CheckVersions->new(-mod=>WormBase); my $version = $gmod->live_version; Update a MOD installation...
Platforms: *nix
License: Freeware | Size: 71.68 KB | Download (106): Bio::GMOD::Admin::Monitor::blat Download |