Register training material
17 materials found

Resource type: Jupyter notebook  or Poster 


BioExcel Building Blocks (BioBB) Training Material

BioExcel Building Blocks (BioBB) is a software library for interoperable biomolecular simulation workflows, built within the BioExcel CoE project, and developed following best practices on software development aligned with ELIXIR.

Keywords: molecular dynamics, Docking, Modeling, life sciences

Resource type: Jupyter notebook

DE-Sim examples, tutorials, and documentation

DE-Sim is an open-source, Python-based object-oriented discrete-event simulation (DES) tool that makes it easy to use large, heterogeneous datasets and high-level data science tools such as NumPy, Scipy,...

Scientific topics: Computational biology, Mathematics, Computer science, Simulation experiment

Operations: Visualisation, Modelling and simulation

Keywords: data-driven modeling, Computational modelling, discrete-event simulation, DES, object-oriented programming, Python, data visualization, Data Science

Resource type: examples, Tutorial, Jupyter notebook, API reference

Introductory image processing on biological images using python.

This is an image processing practical for students with an interest in analysing biologically derived images. It is written in the language python and utilises jupyter notebook for annotation and visualisation of the code. The practical is beginner level, although some knowledge of python is...

Resource type: Jupyter notebook, PDF

Jalview

Dr James Proctor of the University of Dundee discusses the Jalview tool in the Vis Tools & Bio Challenges session of the 1st BiVi Annual Meeting
Created at: 1st BiVi Annual Meeting.

Scientific topics: Phylogenetics

Keywords: Genome, Molecular, Phylogenetics

Resource type: Poster, Video

Validation and Visualisation of Electron Microscopy Density Fits

Poster presentation by Dr Maya Topf at 1st BiVi Annual Meeting in 2014
Created at: 1st BiVi Annual Meeting.

Resource type: Poster

Foldsynth

Prof. Frederic Fol Leymarie discusses the Foldsynth project at 1st BiVi in 2014. A poster presented at the meeting is also included.
Created at: 1st BiVi Annual Meeting.

Keywords: Molecular

Resource type: Poster, Video

Visualisation of cross-linking/mass spectrometry data

Colin Combe discusses the visualisation of cross-linking/mass spectrometry data at 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.

Keywords: Molecular

Resource type: Poster, Video

OME Bio-Formats and OMERO

Poster presentation given at 1st BiVi in 2014
Created at: 1st BiVi Annual Meeting.

Resource type: Poster

XiNET: A molecular interaction viewer

Poster presentation at 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.

Keywords: Molecular

Resource type: Poster

Graphical applica ons for visualiza on and analysis of genotype data sets

Poster presentation from 1st BiVi in 2014
Created at: 1st BiVi Annual Meeting.

Keywords: Genome

Resource type: Poster

Leeds Virtual Microscope and Orchestral

Dr Roy Ruddle discusses large displays for visualisation and the Leeds Virtual Microscope and Orchestral tools at 1st BiVi in 2014. Posters presented regarding the two tools discussed are also included.
Created at: 1st BiVi Annual Meeting.

Keywords: Genome

Resource type: Poster, Video

Evaluation of Helium: Visualisation of Large Scale Plant Pedigrees

Poster presentation at 1st BiVi in 2014 regarding the user evaluation of the Helium visualisaiton tool.
Created at: 1st BiVi Annual Meeting.

Keywords: Genome, Populations, HCI

Resource type: Poster

Zegami: A tool for image data exploration

Stephen Taylor discusses the Zegami visualisation tool at 1st BiVi in 2014. An associated poster is also available.
Created at: 1st BiVi Annual Meeting.

Keywords: Anatomy Physiology and Atlases, Cells and Organisms, Genome

Resource type: Poster, Video

Model organism analysis using Intermine

Poster presented at 3rd BiVi in April 2017.InterMine is an open source data warehouse based in the University of Cambridge. We integrate data from disparate sources and provide a single unified interface, allowing you to access your data via an easy-to-use webapp or API. InterMine has over 30...

Keywords: Cells and Organisms

Resource type: Poster

XiGUI- Visual Interface to Cross-Linking Mass Spectrometry Data

Poster presentation at 3rd BiVi in April 2017.
Created at: 3rd BiVi Annual Meeting (2017).

Keywords: Molecular

Resource type: Poster

Web-based Tools for Integrative Analysis of Pancreatic Cancer Data

Poster presentation at 3rd BiVi in April 2017.Presenitng a suite of web applications, developed for the PRECISION-Parc initiative, to provide integrative analyses of genomic and transcription data from patient primary samples, cell lines and xenografts, as well as clinical data on patient...

Scientific topics: Pathway or network

Keywords: Genome, Pathway

Resource type: Poster

ViCTree-Virus Taxonomy Classification Framework

Poster presentation at 3rd BiVi in April 2017.
Created at: 3rd BiVi Annual Meeting (2017).

Scientific topics: Phylogenetics

Keywords: Phylogenetics

Resource type: Poster