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SimThyr, a numerical simulator of thyrotropic feedback control for education and research

SimThyr is a simulation program for the pituitary thyroid feedback control that is based on a parametrically isomorphic model of the overall system. Applications of this program cover research, including development of hypotheses, and education of students in biology and … Continue reading

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Rating: 5.0. From 1 vote.
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Posted in Medical Sciences, Physiology | Leave a comment

PAL: Phylogenetic Analysis Library

The PAL project is a collaborative effort to provide a high quality Java library for use in molecular evolution and phylogenetics. Updates of PAL are released in regular intervals. At present (version 1.4) PAL consists of approximately 200 public classes/interfaces … Continue reading

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Rating: 5.0. From 1 vote.
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Posted in Genetics | Leave a comment

PHYLIP

PHYLIP Phylogeny Inference Package computer programs for inferring phylogenies Find PHYLIP at: http://evolution.genetics.washington.edu/phylip.html

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Rating: 5.0. From 1 vote.
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Posted in Genetics | Leave a comment

PAML

Phylogenetic Analysis by Maximum Likelihood Find PAML at: http://abacus.gene.ucl.ac.uk/software/paml.html

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Rating: 5.0. From 1 vote.
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Posted in Genetics | Leave a comment

HMMER

Profile hidden Markov models for biological sequence analysis. Find HMMER at: http://hmmer.janelia.org/

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Rating: 4.7. From 10 votes.
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Posted in Bioinformatics | Leave a comment

Dynamite

Dynamite is a code generating language developed for sequence comparison methods. Find Dynamite at: http://www.sanger.ac.uk/Software/Dynamite/

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Rating: 4.7. From 3 votes.
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Posted in Bioinformatics | Leave a comment

SwisTrack: Multi-Object Video Tracking Software

SwisTrack allows for tracking multiple objects such as insects or robots from a video stream provided by a file or directly from a camera. SwisTrack’s user interface allows adjusting parameters on the flight, and thus allow to find an optimal … Continue reading

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Rating: 4.4. From 29 votes.
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Posted in Engineering, Life Sciences | Leave a comment

Phylogen

Phylogen implements some straight-forward birth-death models for simulating phylogenies. It is intended to be fast and flexible and can simulate very large trees (depending on memory and speed of computer). It will then optionally reconstruct trees only containing extant lineages … Continue reading

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Rating: 4.4. From 8 votes.
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Posted in Evolution and Population Genetics | Leave a comment

BioJava

Java tools for processing biological data Find BioJava at: http://www.biojava.org/

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Rating: 4.3. From 27 votes.
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Posted in Life Sciences | Leave a comment

ODIN

ODIN – Object Oriented Development Interface for NMR is a framework for rapid prototyping of magnetic resonance imaging sequences. Find ODIN at: http://od1n.sourceforge.net

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Rating: 4.3. From 9 votes.
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Posted in Medical Sciences | Leave a comment