Showing 130 open source projects for "learning linux command line"

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  • 1
    The TandemSearcher is a Java based application for searching for tandem repeats in the DNA sequences. It is based on the Burrows-Wheeler Transform (BWT).
    Downloads: 0 This Week
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  • 2
    PepArML: An unsupervised, model-free, combining peptide identification arbiter for tandem mass spectra via machine learning.
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  • 3
    MutationFinder is a biomedical natural language processing (NLP) system for extracting mentions of point mutations from free text. MutationFinder achieves high performance (99% precision, 81% recall on blind test data) as an information extraction system
    Downloads: 1 This Week
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  • 4
    The ExactFDR software package is an improvement of permutation-based False Discovery Rate (FDR) estimation methods that takes advantage from exact p-value computations for analyzing Genome-wide association studies data
    Downloads: 0 This Week
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  • 5
    Wattos is a collection of mostly Java programs for Structural Biology and NMR Spectroscopy. It's programs analyze, annotate, parse, archive, and disseminate experimental NMR data deposited by authors world wide into the PDB and BMRB.
    Downloads: 0 This Week
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  • 6
    The YeastsIdentification is a Java based application for searching for unique DNA sequences. It is based on the Burrows-Wheeler Transform (BWT).
    Downloads: 0 This Week
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  • 7
    AgentCell is an agent-based model of cellular biochemical processes and biological behavior.
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  • 8
    The Genomic Diversity and Phenotype Data Model (GDPDM) captures molecular and phenotypic diversity data. MySQL databases are used to implement the schema. This project develops software tools (written in Java, Perl, etc.) associated with this model.
    Downloads: 0 This Week
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  • 9
    A platform for the integration of deterministic and stochastic models, for the simulation of the integrated models and for interactive exploration of the model behaviour.
    Downloads: 0 This Week
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  • 10
    Esra is a 100% pure java library for the interactive analysis of molecular mechanics data. Mangles your data in your favorite scripting language.
    Downloads: 0 This Week
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  • 11
    The aim of the BioWeka project is to add bioinformatics functionalities such as e.g. alignments to the popular machine learning framework Weka.
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  • 12
    Conrad is both a high performance Conditional Random Field engine which can be applied to a variety of machine learning problems and a specific set of models for gene prediction using semi-Markov CRFs.
    Downloads: 0 This Week
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  • 13
    Bioinformatics tools and applications for the analysis of genomic sequence data.
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  • 14
    OBOES (Open Biomedical Ontology-Based Enrichment and Search) is an information-theory-based platform that embeds new integrative methods allowing biologists to evaluate new hypotheses.
    Downloads: 0 This Week
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  • 15
    The program siRNArules 1.0 can predict active short interfering RNA (siRNA) with a rather high efficiency (see published paper on this in RNA journal). This project aims to develop new versions, siRNArules 2.0 etc.
    Downloads: 0 This Week
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  • 16
    Avian Freeware Suite (AFS) provides two things: Developers with libraries for Java Swing Widgets, XML handling, Fortran95 and Pascal; End users (Medical students, doctors, scientists) with productivity tools they can use (quizzes, XML databasing & PDF)
    Downloads: 0 This Week
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  • 17
    In order to facilitate standardization and exchange of microarray layout, this project provides an ADF (Array design File))/MAGE-ML converter.
    Downloads: 0 This Week
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  • 18
    LineageEvolver is a simulation system for molecular evolution. Sequence evolution is simulated using modular processes such as substitutions, gene duplication/death, horizontal gene transfer, and more.
    Downloads: 0 This Week
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  • 19
    neochip is a collection of algorithms for high-density oligonucleotide microarrays. The current version contains heuristic algorithms that attempt to improve the quality of arrays by re-designing their layout (the location of the probes on the chip).
    Downloads: 0 This Week
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  • 20
    A command-line program to manipulate annotated genetic sequences (initially in EMBL format). The user supplies a pattern to identify which features or qualifiers to process. These can then be deleted, renamed etc
    Downloads: 0 This Week
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  • 21
    Yawn: Yet Another W* Network: a java framework for developing, training and testing neural networks independently of the model and test environment.
    Downloads: 0 This Week
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  • 22
    NeoBio is a Java class library of Computational Biology Algorithms. The current version consists mainly of pairwise sequence alignment algorithms such as the classical dynamic programming methods of Needleman-Wunsch and Smith-Waterman.
    Downloads: 0 This Week
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  • 23
    This is a Java implementation of Edmonds' Algorithm (Chu-Liu Algorithm) for finding maximum branchings in a directed graph.
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  • 24
    A software framework to support distributed evolutionary software development. It dynamically creates a network of nodes that can run a pre-distributed source code (e.g. artificial lifeforms). The results of the calculation will be sent back to the maste
    Downloads: 0 This Week
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  • 25
    Frigg is an umbrella for all public GenomeView support tools
    Downloads: 0 This Week
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