Laura Rodriguez-Navas
Computer Engineer in Barcelona Supercomputing Center (BSC)
SEEK ID: https://workflowhub.eu/people/4
Location:
Spain
ORCID:
https://orcid.org/0000-0003-4929-1219
Joined: 6th Apr 2020
Expertise: Bioinformatics, Computer Science, AI, Machine Learning
Tools: Not specified
Team roles
Project administrator
Their tagsEOSC-Life - Demonstrator 7: Rare Diseases (Barcelona Supercomputing Center (BSC-CNS)) ; iPC: individualizedPaediatricCure (Barcelona Supercomputing Center (BSC-CNS))
GalaxyProject SARS-CoV-2 (Barcelona Supercomputing Center (BSC-CNS)) ; nf-core viralrecon (Barcelona Supercomputing Center (BSC-CNS)) ; MGnify (Barcelona Supercomputing Center (BSC-CNS)) ; EJPRD WP13 case-studies workflows (Barcelona Supercomputing Center (BSC-CNS)) ; TransBioNet (Barcelona Supercomputing Center (BSC-CNS)) ; OpenEBench (Barcelona Supercomputing Center (BSC-CNS))
Related items
EOSC-Life brings together the 13 Life Science ‘ESFRI’ research infrastructures (LS RIs) to create an open, digital and collaborative space for biological and medical research.
The project will publish ‘FAIR’ data and a catalogue of services provided by participating RIs for the management, storage and reuse of data in the European Open Science Cloud (EOSC).
Teams: EOSC-Life - Demonstrator 7: Rare Diseases, EOSC-Life WP3
Web page: https://www.eosc-life.eu/
A space managed by WorkflowHub administrators for teams that don't want/need to manage their own space.
Teams: IBISBA Workflows, NMR Workflow, UNLOCK, NanoGalaxy, Galaxy Climate, PNDB, IMBforge, COVID-19 PubSeq: Public SARS-CoV-2 Sequence Resource, LBI-RUD, Nick-test-team, usegalaxy-eu, Italy-Covid-data-Portal, UX trial team, Integrated and Urban Plant Pathology Laboratory, SARS-CoV-2 Data Hubs, lmjxteam2, virAnnot pipeline, Ay Lab, iPC: individualizedPaediatricCure, Harkany Lab, Genomics Coordination Center, EJPRD WP13 case-studies workflows, Common Workflow Language (CWL) community, Testing, SeBiMER, IAA-CSIC, MAB - ATGC, Probabilistic graphical models, GenX, Snakemake-Workflows, ODA, IPK BIT, CO2MICS Lab, FAME, CHU Limoges - UF9481 Bioinformatique / CNR Herpesvirus, Quadram Institute Bioscience - Bioinformatics, HecatombDevelopment, Institute of Human Genetics, Testing RO Crates, Test Team, Applied Computational Biology at IEG/HMGU, INFRAFRONTIER workflows, OME, TransBioNet, OpenEBench, Galaxycompchem, Bioinformatics and Biostatistics (BIO2 ) Core, VIB Bioinformatics Core, CRC Cohort, ICAN, MustafaVoh, Single Cell Unit, CO-Graph, emo-bon, TestEMBL-EBIOntology, CINECA, Toxicology community, Pitagora-Network, Workflows Australia, Medizinisches Proteom-Center, Medical Bioinformatics, AGRF BIO, EU-Openscreen, X-omics, ELIXIR Belgium, URGI, Size Inc, GA-VirReport Team, The Boucher Lab, Cluster Emergent del Cervell Humà, Air Quality Prediction, pyiron, CAPSID, Edinburgh Genomics, Defragmentation TS
Web page: Not specified
The goal of COVID-19-Biohackathon 2020 (COVID-19-BH20) is to develop and gather computational tools that can be useful for studying the biology of the virus and the disease.
The COVID-19 Programme in Workflow Hub aims to gather workflows for the analysis of COVID-19 molecular biology data and their metadata. In this programme, all workflows and their metadata will be curated and made interoperable, reusable and reproducible. All workflows and their metadata will be easily accessible to everyone ...
Teams: Connor Lab, GalaxyProject SARS-CoV-2, InSaFLU, nf-core viralrecon, CWL workflow SARS-CoV-2, V-Pipe, Test team
Web page: https://github.com/virtual-biohackathons/covid-19-bh20
MGnify (formerly known as EBI Metagenomics) is a free resource for the assembly, analysis, archiving and browsing all types of microbiome derived sequence data.
Space: This Team is not associated with a Space
Public web page: https://www.ebi.ac.uk/metagenomics/
Ongoing analysis of COVID-19 using Galaxy, BioConda and public research infrastructures https://covid19.galaxyproject.org
Space: COVID-19 Biohackathon
Public web page: https://github.com/galaxyproject/SARS-CoV-2
EJPRD WP13 case-studies workflows from phase 1.
Space: Independent Teams
Public web page: https://www.ejprarediseases.org/
TransBioNet is the Translational Bioinformatics Network impulsed and coordinated by the Spanish National Bioinformatics Institute (INB) as a reference network of 35+ bioinformatics support units working at health care settings including Health Research Institutes (IIS) certified by the Carlos III Health Institute (ISCIII), and bioinformatics core facilities from biomedical research institutions. TransBioNet is an Excellence Thematic Network (Red de Excelencia Temática) recognized by the Spanish ...
Space: Independent Teams
Public web page: https://inb-elixir.es/transbionet
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). ...
Space: Independent Teams
Public web page: https://openebench.bsc.es
StructuralVariants Workflow
Type: Nextflow
Creators: Laura Rodriguez-Navas, Adrián Muñoz-Civico, Daniel López-López
Submitter: Laura Rodriguez-Navas
StructuralVariants Workflow
Type: Common Workflow Language
Creators: Laura Rodriguez-Navas, Daniel López-López
Submitter: Laura Rodriguez-Navas
MultiAffinity enables the study of how gene dysregulation propagates on a multilayer network on a disease of interest, uncovering key genes. Find the detailed documentation for the tool here.
Type: Common Workflow Language
Creators: Laura Rodriguez-Navas, Mar Batlle
Submitter: Laura Rodriguez-Navas
Download
Description
The workflow takes an input file with Cancer Driver Genes predictions (i.e. the results provided by a participant), computes a set of metrics, and compares them against the data currently stored in OpenEBench within the TCGA community. Two assessment metrics are provided for that predictions. Also, some plots (which are optional) that allow to visualize the performance of the tool are generated. The workflow consists in three standard steps, defined by OpenEBench. The tools needed ...
Type: Nextflow
Creators: José Mª Fernández, Asier Gonzalez-Uriarte, Javier Garrayo-Ventas
Submitter: Laura Rodriguez-Navas
Exome SAMtools Workflow
