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Open Chemistry Project: BEDtools "Genome arithmetic"—manipulation of coordinate sets and the extraction of sequences from a BED file. Linux: MIT: QuinlanLab, University of Utah: Bioclipse: Visual platform for chemo- and bioinformatics based on the Eclipse Rich Client Platform (RCP) Linux, macOS, Windows [1] Eclipse Public: The Bioclipse ...
This server includes many bioinformatics tools that are widely useful in many areas of genomics research. Users can create logins, and save histories, workflows, and datasets on the server. These saved items can also be shared with others. As open-source software that can be downloaded, installed and customized to address specific needs. [20]
List of open-source bioinformatics software; Alternatively, here is a categorization according to the respective bioinformatics subfield specialized on: Sequence analysis software. List of sequence alignment software; List of alignment visualization software; Alignment-free sequence analysis; De novo sequence assemblers; List of gene prediction ...
Genomics – The term "open-source genomics" refers to the combination of rapid release of sequence data (especially raw reads) and crowdsourced analyses from bioinformaticians around the world that characterised the analysis of the 2011 E. coli O104:H4 outbreak. [63]
open-source database for molecular interactions Protein-protein and other molecular interactions String: an open source molecular interaction database to study interactions between proteins Protein-protein and other molecular interactions Human Protein Atlas: Human Protein Atlas: aims at mapping all the human proteins in cells, tissues and organs
Performs affine-transform-optimized global alignment, which is slower but more accurate than Smith-Waterman. Handles Illumina, 454, PacBio, Sanger, and Ion Torrent data. Splice-aware; capable of processing long indels and RNA-seq. Pure Java; runs on any platform. Used by the Joint Genome Institute. Yes Yes Yes Yes Free, BSD: 2010 BFAST
Cytoscape is an open source bioinformatics software platform for visualizing molecular interaction networks and integrating with gene expression profiles and other state data. Additional features are available as plugins. Plugins are available for network and molecular profiling analyses, new layouts, additional file format support and ...
Pan genomics is a concept introduced in 2005 by Tettelin and Medini. ... Open-source bioinformatics software includes ... Some of the platforms giving this service ...