The FreeBSD Ports Collection ("biology")


You are now in the directory "biology".

This is the one-line description for this category:


Biology


Here are the one-line descriptions for each items in this directory:


L-Breeder-1.0: Allows you to display and breed L-system forms
act-2.0: A DNA sequence comparison viewer based on Artemis
artemis-4.0: A DNA sequence viewer and annotation tool
avida-1.6.0: Avida is an auto-adaptive genetic system designed for ALife research
babel-1.6_3: Converts among various molecular file formats
biojava-1.01: Open-source java tools for processing biological data
chemeq-1.10_1: Outputs LaTeX code for chemical reaction
clustalw-1.83: CLUSTAL W Multiple Sequence Alignment Program
coalesce-1.50: A program to fit population models
crimap-2.4: Creation of multilocus linkage maps
deft-2.2_2: Density functional molecular orbital calculation
distribfold-0.1.20030425: distributedfolding.org distributed protein folding project
dna-qc-1993.07.26: A quality control algorithm for DNA sequencing projects
emboss-2.4.1_2: A collection of open source tools for genetic sequence analysis
fasta-20.u66: A collection of programs for searching DNA and protein databases
fasta3-33.t08.d4: A collection of programs for searching DNA and protein databases, v3
fastdnaml-1.2.2: Faster DNAML, makes phylogenetic trees using maximum likelihood
flip-2.0.2: Flip is used to find/translate orfs
fluctuate-1.30: A program to fit population models
garlic-1.4: Molecular viewer, editor and visualization program
genpak-0.26_2: A set of small utilities to manipulate DNA sequences
gff2ps-0.97b: Converts gff-formated genomic data-sets to PostScript
gperiodic-2.0.7: Displays a periodic table of the elements
grappa-1.0.3: Genome Rearrangements Analysis and Phylogeny Software
hmmer-2.2.g_1: Profile hidden Markov models for biological sequence analysis
kinemage-5.79: A molecular visualization program with special functions
lamarc-2001.08.06: A package of programs for computing population parameters
libgenome-0.5.2: Toolkit for developing bioinformatic related software in C++
lsysexp-0.67: A GTK based program for viewing and creating L-system fractals
migrate-1.2.4: A program to estimate population sizes and migration rates
molden-3.9: Display molecular orbitals and electron densities in 2D and 3D
mopac-7.02: Semi-empirical (MNDO, etc.) molecular orbital calculation
nab-4.5.2: "This is nab (nucleic acid builder), a language for macromolecules"
ncbi-toolkit-2003.04.21: NCBI development toolkit, including BLAST 2 and GenBank/Entrez support
nclever-4.0: NClever is a character-based version of NCBI's Entrez program
ortep3-1.0.3_2: The Oak Ridge Thermal Ellipsoid Plot Program for Crystal Structure
p5-AcePerl-1.83: Perl5 interface to the ACEDB genome database system
p5-bioperl-0.7.2: A collection of Perl modules for bioinformatics
paml-3.13: Phylogenetic Analysis by Maximum Likelihood (PAML)
phylip-3.6.a3: A Phylogeny Inference Package
platon-2001.03.09_1: Tool for viewing molecular/crystallographic structures
povchem-1.0_2: Simple yet powerful tool to generate POV from a PDB file
primer3-0.9: Primer3 helps to choose primers for PCR reactions
psi88-1.0: Plotting wavefunctions (molecular orbitals) in 3D
py23-biopython-1.00.a4: A collection of Python modules for bioinformatics
pymol-0.90: Free and Open-Source molecular modeling system
rasmol-2.7.2_1: Fast Molecular Visualization Program
recombine-1.40: A program to fit population models across sites
ruby-bio-0.5.3: Integrated environment for Bioinformatics written in Ruby
seaview-2003.11.17: Multiple DNA/protein sequence alignment editor
seqio-1.2.2: A set of C functions which can read/write biological sequence files
sim4-2002.03.03: An algorithm for aligning expressed DNA with genomic sequences
spdbv-3.7: Deep View Swiss-PdbViewer is a Protein viewer and analysis tool
tRNAscan-SE-1.21: An improved tool for transfer RNA detection
t_coffee-1.37: A multiple DNA or protein sequence alignment package
tinker-4.1: A general purpose molecular modelling package
treepuzzle-5.1: Maximum likelihood phylogeny reconstruction using quartets
treeviewx-0.3_1: A phylogenetic tree viewer
wise-2.2.0: Intelligent algorithms for DNA searches
xdrawchem-1.7.3: Chemical drawing program
xmolwt-0.7: Calculate formula weight and percent of each element for a given formula

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