Teams

Software and data format standards for management of microscopy image data. Joint project between international private and public research

OpenEBench (https://openebench.bsc.es) is the ELIXIR benchmarking and technical monitoring platform for bioinformatics tools, web servers, and workflows. OpenEBench is part of the ELIXIR Tools platform and its development is led by the Barcelona Supercomputing Center (BSC) in collaboration with partners within ELIXIR and beyond.

Within the ELIXIR project, OpenEBench is being developed under the Tools Platform at the Work Package 2 (WP2: Benchmarking) (https://elixir-europe.org/platforms/tools). ...

Here we introduce a scientific workflow implementing several open-source software executed by Parsl parallel scripting language in an high-performance computing environment. We have applied the workflow to a single-cardiomyocyte RNA-seq data retrieved from Gene Expression Omnibus database. The workflow allows for the analysis (alignment, QC, sort and count reads, statistics generation) of raw RNA-seq data and seamless integration of differential expression results into a configurable script code. ...

Personalized Medicine Center of Excellence

An open-source bioinformatics community, based in Japan. Members include academic and private companies. Working with the topics such as workflow sharing and cloud computing infrastructure.