Content deleted Content added
linked to the e!DAL PGP article |
m →Tools: Fixing links to disambiguation pages, replaced: Open source software → Open source software |
||
Line 51:
=== Tools ===
de.NBI develops and supplies about 100 bioinformatics tools for the German and global life sciences community, e.g. [[Galaxy (computational biology)]]/useGalaxy.eu (Workflow engine for all Freiburg RNA Tools)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28554830 RNA-bioinformatics: Tools, services and databases for the analysis of RNA-based regulation by Backofen et al., 2017]</ref>, EDGAR (Comparative Genome Analyses Plattform)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28705636 A review of bioinformatics platforms for comparative genomics. Recent developments of the EDGAR 2.0 platform and its utility for taxonomic and phylogenetic studies by Yu et al., 2017]</ref>, [[KNIME]] (Workflow engine)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28757290 KNIME for reproducible cross-___domain analysis of life science data by Fillbrunn et al., 2017]</ref>, [[OpenMS]] (Open-source software C++ library for LC/MS data management and analyses)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28559010 OpenMS - A platform for reproducible analysis of mass spectrometry data by Pfeuffer et al., 2017]</ref>, [[SeqAN]] (Open source [[C++]] library of efficient algorithms and data structures)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28888961 The SeqAn C++ template library for efficient sequence analysis: A resource for programmers by Reinert et al., 2017]</ref>, PIA (toolbox for MS based protein inference and identification analysis)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28606611 BioInfra.Prot: A comprehensive proteomics workflow including data standardization, protein inference, expression analysis and data publication by Turewicz et al., 2017]</ref>, [[Fiji (software)]] (Image processing package), [[MetFrag]] (in silico fragmenter combines compound database searching and fragmentation prediction for small molecule identification from tandem [[mass spectrometry]] data)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28554829 Bioinformatics can boost metabolomics research by Meier et al., 2017]</ref>, [[COPASI]] ([[Open-source software|Open source]] software application for creating and solving [[mathematical models]] of [[biological processes]])<ref>[https://www.ncbi.nlm.nih.gov/pubmed/28655634 COPASI and its applications in biotechnology. Bergmann et al., 2017]</ref>, [[SIAMCAT]] (Framework for the statistical inference of associations between [[microbial communities]] and host [[phenotypes]]), [[The e!DAL Plant Phenomics and Genomics Research Data Repository|e!DAL - PGP]] (Open source software framework to publish and share research data), MGX ([[Metagenome]] analysis)<ref>[https://www.ncbi.nlm.nih.gov/pubmed/29690922 Flexible metagenome analysis using the MGX framework. Jaenicke et al., 2018]</ref> and many more.
de.NBI tools are also registered and searchable in the ELIXIR Tools and Data Services Registry that provides more information in a standardized format.
| |||