Achilles Life Simulator
Watch a simulation of artificial life and evolution
Adun
Biomolecular Simulator
ARB
Visit http://www.arb-home.de
Cain
simulations of chemical reactions
Clustal X
Global multiple nucleotide or peptide sequence alignment and phylogenetic analysis
EMBOSS Explorer
Starts the default web browser on the local EMBOSS Explorer website.

Garlic Protein Visualization
Visualize and investigate proteins and some geometric objects

GENtle
Suite to plan genetic cloning
ImageJ
Image processing and analysis
Jemboss
Graphical user interface for the European Molecular Biology Open Software Suite.

Mauve
Multiple Genome Aligner
LTRsift
A graphical tool for postprocessing and classification of LTR retrotransposons.
massXpert
Bio-polymer modelling and mass spectrometry data simulation software
Melting
"Computes the melting temperature for a nucleic acid duplex."

Cn3D NCBI Database Viewer
View NCBI databases in 3D

Sequin DNA Sequence Submission Tool
Submit DNA sequences to the GenBank, EMBL, and DDBJ databases

DDV Sequence Alignment Viewer
View multiple sequence alignment for GenBank

Entrez NCBI Database Querying Tool
Query NCBI databases and retrieve documents

OneD Biological Sequence Viewer
View single biological sequences
NJplot
Displays, modifies and exports in PostScript format phylogenetic trees
OpenCFU
A modern program to count circular objects from pictures or webcams
PerlPrimer
Graphical design of primers for PCR and sequencing
Plasmidomics
Tool for drawing of plasmids and vector maps

RasMol (GTK version)
View macro-molecules and prepare publication-quality images of them
SeaView
Edits multiple sequence alignments and prints them in PostScript format.
gap4
Staden gap4 assembly editor
gap5
Staden gap5 assembly editor
pregap4
Staden pregap4 DNA preprocessor
trev
Staden trev program

TreeView X
Displays, modifies, prints and exports in SVG format phylogenetic trees
NJplot (unrooted)
Displays and exports in PostScript format unrooted phylogenetic trees
Artemis Comparison Tool
Pairwise comparison of DNA sequences
BamView
Visualize Genome-Sequencing Read Alignment Data
DNAPlotter
Make circular plots of DNA sequences

Dawg
Sequence Evolution Simulator

FastQC quality control
quality control for high throughput sequence data

GenBank Submission Template Editor
Edit GenBank submission templates, as used by Sequin.

OpenBabel
Convert between many known molecule data formats

RasMol (classic version)
View macro-molecules and prepare publication-quality images of them

IQmol
Visualize and animate molecules
TOPPAS
an workflow engine for mass spectrometry data analysis
TOPPView
viewer for mass spectrometry data
INIFileEditor
An editor for OpenMS configuration files.
OpenViBE VRPN Simulator
Test VRPN connections
OpenViBE Acquisition Server
Forward signal from signal aquisition hardware
OpenViBE Designer
Create, edit and execute OpenVibe scenarios
mineXpert
Mass spectrometry data analysis and mining (mass spectrum analysis)
Artemis
Genome Browser and Annotation Tool
Scoary
Pangenome-wide association studies