Programs by Package

• ACeDB - Object-oriented biological database engine
• ARTEMIS - DNA sequence annotation
• bioLegato - Programmable graphic user interface
• BIRCH - Biological Research Computing Hierarchy
• CLUSTAL - Multiple sequence alignment
• CONSENSUS - Create consensus patterns from unaligned sequences
• dapple - Image Analysis for DNA Microarrays
• DIALIGN - Multiple sequence alignment
• EBI - Sequence chromatogram viewer
• EMBOSS - General sequence analysis
• FASTA - Pairwise and global similarity searches
• FASTDNAML - Maximum likelihood sequence phylogeny
• forester - Programs and API for phylogeny
• FSAP - Sequence analysis tools
• GCUA - Codon usage analysis
• GDE - Genetic Data Environment
• GENEPARSER - Parse a DNA sequence into introns and exons
• genographer - Score markers from gel images
• GRAZ - Management and analysis of microarray data
• ISREC - Multiple alignment display
• LEASH - client for SeqHound web services
• LINDENBAUM - Find subcloning strategies
• MAGIC - MicroArray Genome Imaging & Clustering
• Mapmaker - Mapping with molecular and phenotypic markers
• MBCRR - Sequence analysis
• MCLAMP - Multiple alignment viewer
• Mesquite - A modular system for evolutionary analysis
• MrBayes - Bayesian inference of phylogeny
• MWC - Oligonucleotide Molecular Weight Calculator
• myGrid - Web services for biology
• NCBI - Database tools - Natl. Ctr. for Biotech. Information
• OGMP - Sequence retrieval
• OSP - Oligonucleotide design
• PHYLIP - Package for Inferring Phylogenies
• PHYLO_WIN - Phylogenetic analysis
• PRIMER3 - Oligonucleotide design
• READSEQ - Sequence format translator
• RETICULATE -
• Sensen - Visualization and annotation of genomic information
• Staden - General sequence analysis
• STEM - Short Time-series Expression Miner
• TACG - Restriction digest analysis
• TCOFFEE - Multiple sequence alignment
• TIGR - J. Craig Venter Institute (TIGR)
• TIGR-TM4 - TIGR Microarray programs
• TREETOOL - Phylogenetic tree editor
• vanilla - phylogeny tools
• weighbor - weighted neighbor-joining
• XLANDSCAPE - Find motifs in a group of sequences
• XYLEM - Create and manipulate database subsets