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Content provider

Jalview

Jalview (www.jalview.org) is free-to-use sequence alignment and analysis visualisation software that links genomic variants, protein alignments and 3D structure.

Protein, RNA and DNA data can be directly accessed from public databases (e.g. Pfam, Rfam, PDB, UniProt and ENA etc.). Jalview has editing and annotation functionality within a fully integrated, multiple window interface. The sequence alignment programs Clustal Omega, Muscle, MAFFT, ProbCons, T-COFFEE, ClustalW, MSA Prob and GLProb can be run directly from within Jalview. Jalview integrates protein secondary structure prediction (JPred), generate trees, assesses consensus and conservation across sequence families. Journal quality figures can be generated from the results.

The Jalview Desktop will run on Mac, MS Windows, Linux and any other platform that supports Java.

It has been developed in Geoff Barton's group (www.compbio.dundee.ac.uk) in the School of Life Sciences (www.lifesci.dundee.ac.uk) at the University of Dundee with funding from the BBSRC and the Wellcome Trust.

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Organisation

Keywords

Jalview, multiple sequence alignment, MSA, protein sequence, protein sequence analysis, protein structure , protein prediction, protein subfamily analysis, Protein secondary structure, DNA, RNA, Phylogenetic trees

ELIXIR node

United Kingdom

Jalview http://www.jalview.org/ https://tess.elixir-europe.org/content_providers/jalview Jalview (www.jalview.org) is free-to-use sequence alignment and analysis visualisation software that links genomic variants, protein alignments and 3D structure. Protein, RNA and DNA data can be directly accessed from public databases (e.g. Pfam, Rfam, PDB, UniProt and ENA etc.). Jalview has editing and annotation functionality within a fully integrated, multiple window interface. The sequence alignment programs Clustal Omega, Muscle, MAFFT, ProbCons, T-COFFEE, ClustalW, MSA Prob and GLProb can be run directly from within Jalview. Jalview integrates protein secondary structure prediction (JPred), generate trees, assesses consensus and conservation across sequence families. Journal quality figures can be generated from the results. The Jalview Desktop will run on Mac, MS Windows, Linux and any other platform that supports Java. It has been developed in Geoff Barton's group (www.compbio.dundee.ac.uk) in the School of Life Sciences (www.lifesci.dundee.ac.uk) at the University of Dundee with funding from the BBSRC and the Wellcome Trust. /system/content_providers/images/000/000/091/original/logo-boxg.png?1524735946

Owner

SDuce
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  • Face-to-face
    Workshops and courses

    Introduction to Jalview

    ELIXIR node event

    4 - 5 October 2023

    Dundee

    Face-to-face

    sequence alignment comparative sequence analysis protein structure prediction

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Version: 1.3.2
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TeSS has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 676559.