MUMmer is a modular system for the rapid whole genome alignment of finished or draft sequence. This package provides an efficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization tools.
AMOS is a collection of tools for genome assembly
AMOS is a collection of tools and class interfaces for the assembly of DNA reads. The package includes a robust infrastructure, modular assembly pipelines, and tools for overlapping, consensus generation, contigging, and assembly manipulation.
GMOD is a set of interoperable open source software components for visualizing, annotating, and managing biological data. See http://gmod.org for more.
A cross-platform interface for the *.mfj file format.
mobcalPARSER is a command line based PERL frontend/interface for MOBCAL with limited wrapper functionality. "MOBCAL - A Program to Calculate Mobilities" is available from Professor Martin F. Jarrold's webpage http://www.indiana.edu/~nano/software.html.
A web-based software package for comparative genomics
Sybil is a web-based software package for comparative genomics
DAGchainer identifies chains of gene pairs sharing conserved order between genomic regions, by identifying paths through a directed acyclic graph (DAG).
GLEAN is an unsupervised learning system to integrate disparate sources of gene structure evidence (gene model predictions, EST/protein genomic sequence alignments, SAGE/peptide tags, etc) to produce a consensus gene prediction, without prior training.
PerlCE provides pre-built perl binaries and some popular extensions for various WinCE platforms
The Introspector enables the programming tools that deal with source code such as the compiler to communicate in a standard and neutral manner reducing the accidental cost of programming. http://github.com/h4ck3rm1k3/
An nmap output parser for scan data using PERL. Nmap Parser is a PERL module that makes developing security and audit tools using nmap and PERL easier. nmap is one of the best security scanners.
EVidenceModeler (aka EVM) combines ab initio gene predictions and spliced protein and transcript alignments into weighted consensus gene structure predictions.
SyntenyMiner provides a user interface to navigate matches between multiple genome sequences.
To provide basic text-to-speech capability on as many platforms and for as many spoken languages as possible by formant synthesis from an International Phonetic Alphabet representation.
An RPN calculator for vectors of arbitrary dimension. Supports multiple undo/redo, programmable macros and variables. Saves/loads stack to/from disk. Lots of built-in scalar, vector, stack functionality.
Algorithm::MatchingModel is a perl library for running match simulations and statistics for two-sided matching problems. It includes classes for a preference factory, algorithm plug-ins, and gathering statistics between rounds.
The system is designed for the automated analysis of high throughput sequencing data. At present Aped is focused on the analysis of data derived from Sanger and 454 sequencing. Additional functionality exists for SAGE and taxonomic profiling.
Biospha is a suite of perl scripts based on bioperl toolkit intended to help researches to manage large sequence file. With BIOSPHA you can classify each sequence according to the NCBI taxonomy. You also can get all taxonomic info from a GI or Taxid.
BLibrestez Robotics Software Library Project
http://sourceforge.net/feeds/p/PROJECT-BLIBRESTEZ55ROBOTICS/issueupdates/basic BLIBRESTEZ55ROBOTICSPROJECT/downloads/basic http://sourceforge.net/feeds/p/PROJECT Copyright©2011-2020 BLibrestez55Ro
BigRedBin is a web-based tool designed to pre-process metabolomics data generated by a mass spectrometer in an attempt to increase the signal-to-noise ratio. This is accomplished by using information from multiple technical replicates.
BioGraphNet is a 'sandbox' within BioMOBY, comprising a common standard and collection of services for sharing distributed protein-interaction network information. We now serve several network data types, and encourage others to participate.
Bobware tool suite is a set of small EDA tools which are useful in the design of integrated circuits. The suite contains a perl/tk script for region planning large ASICs (application specific integrated circuits.)
A useful collection of batch files and scripts for daily purposes (backup, security, system management, etc.) and development
ChkChak - Killbird, SEO dream, Twitter nightmare.
Basically SEO dream on handling a Twitter account, Source code is using 90% zpx modeling and available in zpx modeling.
Chronic is a constraints-based, opportunistic, application level scheduler in the spirit of cron.
Coati is a web development framework and API for genome databases that supports multiple database vendors and database schemas.