bioinformatics
Projects with this topic
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OTP, One Touch Pipeline, Documentation at https://one-touch-pipeline.gitlab.io/otp/
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Common Workflow Language - computational workflows
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SonicParanoid is a stand-alone software tool for the identification of orthologous relationships among multiple species.
For details go to the wiki-page
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Proteinortho is a tool to detect orthologous genes within different species. (Download)
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Armadillo: fast C++ library for linear algebra (matrix maths) & scientific computing - https://arma.sourceforge.net
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Unix toolkit for feature analysis of alternative splicing events. Includes basic functions for manipulating tables, extraction of exon and intron-related features, discriminate feature analysis, motif maps for RNA-binding proteins, and more.
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Nextflow pipeline for DamID analysis
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Software to compute the melting temperature of nucleic acid duplexes
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Tavit (Trimming, Alignment and Variant Identification Tool) pipeline made in Python with Anaconda.
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Splicing analysis: Extract from mapped RNA-Seq-reads information on intron removal-order for exons genome-wide, and estimate their PSI values (percent-spliced-in) and PIR values (percent-intron-retention) of their flanking introns.
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Crawl any filesystem for genome data, providing one-click opening in IGV
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Scripts for pathway enumeration and random flux sampling of metabolite exchanges in microbial models.
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A d3 javascript SVG visualization of alternative splicing of randomly seeded exons from a random genome
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Python scripting for molecular dynamics simulation using GROMACS
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