Usuario:Alexsavio

Outside

Inside

• Contact:

• My PGP key: alexsavio_pgp.key

Material

Seguimientos

Pedradas

Surveys (wiki under construction)

Friday Sessions

Alexandre Manhães Savio

Studies

• PhD Thesis: Experiments of Machine Learning for Neurodiagnosis. Director: Prof. Manuel Graña Romay. 08/Nov/2013

PhD thesis

Dissertation slides

• January/2010 - November/2013 - PhD Student in the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country. Beca de Formación de Personal Investigador del Gobierno Vasco desde Enero del 2010, renovable los 3 años siguientes.

• Information Engineer (October 2006) - University of the Basque Country

Work Experience

• November/2018 - present - Cloud Applications Developer in Nordcloud Deutschland GmbH, München.

• November/2017 - present - Part-time post-doctoral researcher in the Nuclear Medicine Department of the Klinikum rechts der Isar - Technische Universität München.

• November/2017 - October/2018 - Engineer in Siemens AG, München.

• April/2017 - October/2017 - IT Architect for MaibornWolff Gmbh, München.

• October/2015 - March/2017 - Post-doctoral research in the Nuclear Medicine Department of the Klinikum rechts der Isar - Technische Universität München, Ismaninger Str. 22, 81675 Munich, Germany,

multi-modal brain PET-MRI processing and classification for detection of dementiae, collaboration with the Wrocław University of Technology. Board member of the EuroPython Society and organizer of EuroPython 2016.

• January/2015 - October/2015 - Post-doctoral researcher for the European ENGINE Project at the Wrocław University of Technology, Poland.

collaborations with the local research group, Spanish clinical staff for medical image processing projects, brain fMRI image processing, Python programmer and EuroPython 2015 organizer.

• December/2013 - December/2014 - Post-doctoral researcher at the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country

collaborations with clinical staff for medical image processing projects, brain fMRI image processing, Python programmer and EuroPython 2015 organizer.

• January/2010 - November/2013 - PhD Student in the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country. 4 years pre-doctoral grant from the Basque Government.

Brain MR image processing and application of classification algorithms for the detection of brain neuronal disorders. Testing of new multishell brain HARDI models.

• February/2008 - December/2009 - Research assistant at the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country

MR image processing and application of classification algorithms for the detection of brain neuronal disorders.

• April/2007 - January/2008 - Software Engineer in InnovaeVision, San Sebastián, Guipúzcoa, Spain.

Java, Spring Framework, Hibernate, C/C++ in GNU/Linux, GTK 2, Cairo graphics, DirectFB

• July/2004 - April/2007 - Software Engineer in JADE Systems S.L., Zizur Mayor, Navarra, Spain.

C/C++, C++ Borland Builder 6, GUI design, Programming language parser (ANTLR), GNU/Linux Systems administration

Courses

• July 7th-11th, 2008 - AERFAI Summer School - PRMA'08 - Pattern Recognition for Motion Analysis in the Computer Vision Center of the Universidad Autónoma de Barcelona.

• July 1st-12th, 2009 - Athinoula A. Martinos Center for Biomedical Imaging, Boston, MA - Two-Week Multi-Modality Short Course

• May 31st - June 4th, 2010 - FSL Course organised by FMRIB, Oxford, the Martinos Center, MGH and Heidelberg & Würzburg Universities in Heidelberg, Germany.

Internships

• January 24th - July 31st, 2011 - FMRIB, University of Oxford, UK with Dr. Saad Jbabdi. On ball&stick diffusion models for multishell HARDI and model selection.

Software

• Pypes: a Python module based on Nipype for multimodal neuro-image pre-processing.

• Aizkolari tools: a ZIP file with the repository on Sept 20th, 2013. click here

• My github homepage

• Neurita free software packages

• Interlines (my blog)

• 19-10-12 Tutorial sobre Python y scikit-learn

• Copies of some software in my GitHub account:

visualize_volume

OASIS_AAL

OASIS_feets

Publications

BibTex File

Post-processed datasets from the work done in the group.

2017

Alexandre Savio, Sarah Fünger, Masoud Tahmasian, Srinivas Rachakonda, Andrei Manoliu, Christian Sorg, Timo Grimmer, Vince Calhoun, Alexander Drzezga, Valentin Riedl and Igor Yakushev

Resting state networks as simultaneously measured with fMRI and PET

The Journal of Nuclear Medicine, First published March 2, 2017,

doi: 10.2967/jnumed.116.185835

http://jnm.snmjournals.org/content/early/2017/02/23/jnumed.116.185835.abstract

Alexandre M. Savio, Michael Schutte, Manuel Graña and Igor Yakushev

Pypes: Workflows for Processing Multimodal Neuroimaging Data

Front. Neuroinform., 11 April 2017

doi: 10.3389/fninf.2017.00025

https://doi.org/10.3389/fninf.2017.00025

2016

Thomas Stadhouders, Alexandre Savio, Janine Diehl-Schmid, Christian Sorg, Timo Grimmer and Igor Yakushev

Alterations in neurocognitive networks in dementing disorders as assessed with simultaneous PET/fMRI

The Journal of Nuclear Medicine, May 2016, vol. 57, supplement 2.

http://jnm.snmjournals.org/content/57/supplement_2/237.abstract

2015

Konrad JACKOWSKI, Alexandre MANHAES-SAVIO, Boguslaw CYGANEK

Automatic segmentation of brain tumors using tensor analysis and multimodal MRI

XX Medical Informatics & Technologies Conference - 21-23 October 2015. Szcyrk, Poland.

Ariadna Besga, Itxaso González-Ortega, Enrique Echeburúa, Alexandre Savio, Borja Ayerdi, Darya Chyzhyk, Jose LM Madrigal, Juan C. Leza, Manuel Graña, Ana González-Pinto

Discrimination between Alzheimer’s Disease and Late Onset Bipolar Disorder using multivariate analysis

Frontiers in Aging Neuroscience. JCR 2014 - 4.000

Ariadna Besga-Basterra, Darya Chyzhyk, Itxaso González-Ortega, Alexandre Savio, Borja Ayerdi, Jon Echeveste, Manuel Graña, Ana González-Pinto

Eigenanatomy on fractional anisotropy imaging provides white matter anatomical features discriminating between Alzheimer’s Disease and Late Onset Bipolar Disorder

Current Alzheimer Research, Volume 13, Number 5, 2016. PAges 557-565. JCR (2014) 3.889 (Q1 Clin Neurol, Q2 Neurosciences), ISSN: 1875-5828 (Online), ISSN: 1567-2050 (Print)

Maite Termenon, Manuel Graña, Alexandre Savio, Anton Akusok, Yoan Miche, Amaury Lendasse

Brain MRI Morphological Patterns Extraction Tool based on Extreme Learning Machine and Majority Vote Classification

Neurocomputing (aceptado 6 de marzo) [6]

Medrano M, Maiz E, Maldonado-Martín S, Arenaza L, Rodríguez-Vigil B, Ortega FB, Ruiz JR, Larrarte E, Díez I, Sarasúa A, Tobalina I, Barrenechea L, Pérez-Asenjo J, Kannengiesser S, Manhães-Savio A, Echaniz O, Labayen I

The effect of a multidisciplinary intervention program on hepatic adiposity in overweight-obese children: protocol of the EFIGRO study

Contemporary Clinical Trials, Article accepted for publication: 21 Sep 2015, DOI: 10.1016/j.cct.2015.09.017

Darya Chyzhyk, Alexandre Savio, Manuel Graña

Computer Aided Diagnosis of Schizophrenia on resting state fMRI data by Ensembles of ELM

Neural Networks (2015)68:23-33. DOI information: 10.1016/j.neunet.2015.04.002 JCR (2014) 2.708 ,(2013) 2.076 (Q1 CSAI, Q3 Neurosciences), ISSN: 0893-6080

Alexandre Savio, Manuel Graña

Local Activity Features for Computer Aided Diagnosis of Schizophrenia on resting-state fMRI

Neurocomputing (Q1 CSAI: 2.005) (accepted Jan 10th, 2015)

G.A. Papakostas, A. Savio, M. Graña, V.G. Kaburlasos

A Lattice Computing Approach to Alzheimer’s Disease Computer Assisted Diagnosis Based on MRI Data

Neurocomputing, Volume 150, Part A, 20 February 2015, Pages 37–42

http://dx.doi.org/10.1016/j.neucom.2014.02.076

2014

Ariadna Besga, Manuel Graña, Ana Gonzalez-Pinto, Itxaso Gonzalez-Ortega, Alexandre Savio

Observation of Genotype-Phenotype interaction effects on White Matter in Alzheimer Disease and Bipolar Disorder: a randomized controlled trial

Neurogune 14, San Sebastián, Spain.

Alexandre Savio & Manuel Graña

Brain Cloud Computing: Brain image pre-processing made easy and boring

Neurogune 14, San Sebastián, Spain.

Alexandre Savio, Darya Chyzhyk, Manuel Graña

Computer Aided Diagnosis of Schizophrenia based on local-activity measures of resting-state fMRI

9th International Conference, HAIS 2014, Salamanca, Spain, June 11-13, 2014.

Proceedings, pp 1-12. DOI: 10.1007/978-3-319-07617-1_1; Print ISBN: 978-3-319-07616-4 [1]

Darya Chyzhyk, Alexandre Savio, Manuel Graña,

Evolutionary ELM wrapper feature selection for Alzheimer's disease CAD on anatomical brain MRI pdf

Neurocomputing, Volume 128, 27 March 2014, Pages 73-80,

ISSN 0925-2312, http://dx.doi.org/10.1016/j.neucom.2013.01.065.

JCR (2012) 1.634 (T1, Q2 CSAI)

Rosalia Dacosta-Aguayo; Manuel Graña; Alexandre Savio; Marina Fernández-Andújar ; Tibor Auer ; Monica Millán ; Elena López-Cancio ; Cynthia Cáceres ; Nuria Bargalló ; Cesar Garrido ; Maite Barrios ; Inmaculada Clemente ; Monica Hernández ; Jose Munuera ; Antonio Dávalos ; Maria Mataró

Prognostic value of changes in resting-state functional connectivity patterns in cognitive recovery after stroke: a 3T fMRI pilot study

Human Brain Mapping (aceptado 15 nov 2013) online [2]

Impact Factor: 6.878, ISI Journal Citation Reports © Ranking: 2012: 1/14 (Neuroimaging); 1/120 (Radiology Nuclear Medicine & Medical Imaging); 23/252 (Neurosciences)

2013

PhD Thesis - Dissertation slides

Borja Ayerdi, Alexandre Savio, Manuel Graña

Meta-ensembles of classifiers for Alzheimer's disease detection using independent ROI features

IWINAC 2013, Part II, LNCS 7931, pp. 122-130. Springer, Heidelberg (2013)[3]

J.M. Ferrandez et al. (Eds.):

Alexandre Savio, Manuel Graña

An ensemble of classifiers guided by the AAL brain atlas for Alzheimer’s disease detection

IWANN 2013, Part II, LNCS 7903, pp. 107-114. Springer, Heidelberg (2013) draft[4]

I. Rojas, G. Joya, and J. Cabestany (Eds.)

2012

Alexandre Savio, Manuel Graña

Deformation based feature selection for Computer Aided Diagnosis of Alzheimer’s Disease

Expert Systems with Applications, Available online 20 September 2012, Volume 40, Issue 5, April 2013, Pages 1619–1628 [5] draft JCR (2011) 2.203 (Q1 in CSAI)

Darya Chyzhyk, Alexandre Savio and Manuel Grana

Evolutionary ELM wrapper feature selection for Alzheimer's disease CAD on anatomical brain MRI

ELM 2012

Alexandre Savio, Manuel Graña

Supervised classification using deformation-based features for Alzheimer's disease detection on the OASIS cross-sectional database

Advances in Knowledge-Based and Intelligent Information and Engineering Systems. Frontiers in Artificial Intelligence and Applications (FAIA) series, Vol. 243, pages 2191 - 2200, 2012.

Eds: Manuel Graña, Carlos Toro, Jorge Posada, Robert J. Howlett and Lakhmi C. Jain. draft[6]

S. Jbabdi, S.N. Sotiropoulos, A.M. Savio, M. Graña, T.E.J. Behrens

Model-based analysis of multi-shell diffusion MR data for tractography: How to get over fitting problems

Magnetic Resonance in Medicine, Volume 68, Issue 6, pages 1846–1855, December 2012, DOI: 10.1002/mrm.24204 - doi: 10.1002/mrm.24204

A. Bourisly, A. Savio, M. Graña

A Meta-Analysis of FMRI Biomarkers for Alzheimer's Disease

OHBM 2012. June 10-14, 2012 Beijing, China

Darya Chyzhyk, Manuel Graña, Alexandre Savio, Josu Maiora

Hybrid Dendritic Computing with Kernel-LICA applied to Alzheimer’s Disease detection in MRI

Neurocomputing, 2012, Volumen 75, issue 1, pp. 72-77; ISSN 0925-2312; ISI JCR (2006) 0.860, (2007) 0.865, (2008) 1.234 (2009) 1.440 (2010) 1.429

2011

A. Savio, A. Bourisly, M. Graña

On Current Biomarkers for Alzheimer's Disease detected by Machine Learning techniques

ISMRM SCIENTIFIC WORKSHOP: Neuroimaging Biomarkers of Psychiatric Disorders: What are They?. October 13-16, 2011. Montabaur, Germany

• slides (PDF)
• slides (Prezi flash)

M. Graña, M. Termenon, A. Savio, A. Gonzalez-Pinto, J. Echeveste, J. M. Pérez, A. Besga

Computer Aided Diagnosis system for Alzheimer Disease using brain Diffusion Tensor Imaging features selected by Pearson's correlation.

Neuroscience letters, Volume 502, Issue 3, September 20, 2011, Pages 225-229 on line, Index of Impact JCR (2010) 2.055

Alexandre Savio, Manuel Graña, Jorge Villanúa

Deformation based features for Alzheimer's disease detection with linear SVM.

Hybrid Artificial Intelligence Systems, 6th International Conference (HAIS 2011) - HAIS 2011, Part II, LNAI 6679 proceedings, p.336-343. Springer, Heidelberg (2011)

• draft
• Deformation features

2010

Alexandre Savio, Maite García-Sebastián, Darya Chyzhyk, Carmen Hernández, Manuel Graña, Andone Sistiaga, Adolfo Lopez de Munain, Jorge Villanúa

Neurocognitive disorder detection based on Feature Vectors extracted from VBM analysis of structural MRI

Computers in Biology and Medicine (accepted: CBM-D-10-00306R1), Impact index JCR (2009) 1.269

• draft [7]

Data:

GIC-experimental-databases/OASIS_VBM_feature_vectors

List of 98 OASIS females

Alexandre Savio, Juliette Charpentier, Maite Termenón, Ann K. Shinn, Manuel Graña

Neural classifiers for schizophrenia diagnostic support on diffusion imaging data

Neural Network World 20(7):935-949 [8].. ISI JCR 2009: 0.475

• slides
• draft

Data:

• Post-processed subjects: part 1, part 2 and part 3
• Correlation values: part 1, part 2 and part 3
• Feature masks
• Features vectors
• Data extracted from the NAMIC: Brain Multimodality database.

Alexandre Savio, Maite García-Sebastián, Andone Sistiaga, Darya Chyzhyk, Esther Fernández, Fermín Moreno, Elsa Fernández, Manuel Graña, Jorge Villanúa, Adolfo López de Munain

Machine Learning Approach for Myotonic Dystrophy Diagnostic Support from MRI

Recent Advances in Biomedical Signal Processing, 93 - 101; 2010, Bentham Science Publishers

Juan M. Górriz, Elmar W. Lang and Javier Ramírez (Eds),

Manuel Graña, Alexandre M. Savio, Maite García-Sebastián, Elsa Fernández

A Lattice Computing approach for On-line fMRI analysis

Image and Vision Computing 28(7):1155-1161, July 2010,; http://dx.doi.org/10.1016/j.imavis.2009.10.004; ISI JCR (2008) 1.496 (2009) 1.474 (2010) 1.525

Darya Chyzhyk, Maite Termenón, Alexandre Savio

A Comparison of VBM Results by SPM, ICA and LICA

Hybrid Artificial Intelligence Systems, 5th International Conference / HAIS 2010, San Sebastián, Spain, June 23-25, 2010. Proceedings, Part II; Emilio Corchado and Manuel Graña Romay and Alexandre Manhaes Savio, LNCS 6077, Springer Verlag 2010, pp. 429-435; ISBN: 978-3-642-13802-7; DOI 10.1007/978-3-642-13803-4_53

2009

Maite García-Sebastián, Alexandre Savio, Manuel Graña, Jorge Villanúa

On the use of Morphometry based features for Alzheimer's Disease detection on MRI

Bio-Inspired Systems: Computational and Ambient Intelligence. / IWANN 2009 (Part I); Joan Cabestany, Francisco Sandoval, Alberto Prieto, Juan M. Corchado (Editors), LNCS 5517, Springer Verlag 2009, pp. 957-964; ISBN 978-3-642-02477-1; DOI 10.1007/978-3-642-02478-8_120

• draft

Data:

GIC-experimental-databases/OASIS_VBM_feature_vectors

List of 98 OASIS females

Alexandre Savio, Maite García-Sebastián, Manuel Graña, Jorge Villanúa

Results of an Adaboost approach on Alzheimer's Disease detection on MRI

Methods and Models in Artificial and Natural Computation. / IWINAC 2009 (Part II); José Mira, José Manuel Ferrández, José R. Álvarez, Félix de la Paz, F. Javier Toledo (Editors), LNCS 5602, Springer Verlag 2009, pp. 114-123; ISBN 978-3-642-02266-1; DOI 10.1007/978-3-642-02267-8_13

draft

Data:

GIC-experimental-databases/OASIS_VBM_feature_vectors

List of 98 OASIS females

Alexandre Savio, Maite García-Sebastián, Carmen Hernández, Manuel Graña, Jorge Villanúa

Classification Results of Artificial Neural Networks for Alzheimer's Disease Detection

Intelligent Data Engineering and Automated Learning - IDEAL 2009; LNCS 5788, Springer Verlag 2009, pp. 641-648; ISBN: 978-3-642-04393-2; DOI: 10.1007/978-3-642-04394-9_78

draft

Data:

GIC-experimental-databases/OASIS_VBM_feature_vectors

List of 98 OASIS females

2008

Maite García-Sebastián, A. M. Savio, M. Graña

Comments on an Evolutionary Intensity Inhomogeneity Correction Algorithm

| link; Proceedings CEC 2008, pp.4146-4150; ISBN 978-1-4244-1822-0

Alexandre Manhaes Savio

Capítulo de libro en las Actas de las II Jornadas de Inteligencia Computacional - JIC'08

Ramón Moreno Jiménez, Alexandre Manhaes Savio (Editors); Servicio editorial de la UPV/EHU; :ISBN 978-84-296-2316-1

slides_book

Projects

XXIV Premio Toribio Echeverria

* Alexandre Savio y Borja Ayerdi y Manuel Graña: XXIV Premio Toribio Echeverria, Brain Cloud Computing, Premio "Ideas/Proyectos Empresariales" 2014 "Empresa Asmoak" Saria noticias de gipuzkoa,

con el premio

, noticias SPRI

Segundo Premio Laborde Werlinden XIII

• Alexandre Savio, Borja Ayerdi y Manuel Graña: XIII Premio Manuel Laborde Werlinden, 2013 [9] on the local news

MICINN Imagenes Medicas

• Investigador Principal: Manuel Graña
• Participantes:
  • UPV/EHU: Darya Chyzhyk, Blanca Rosa Cases Gutierrez, Alexandre Manhaes Savio, Josu Maiora Oria, Carmen Hernandez Gomez, Pablo Gonzalez Nalda, Borja Fernandez Gauna, Aitzol Ezeiza Ramos
  • Oastek: Esther Fernandez Pardavila, Jorge Alberto Villanua Bernues, Jon Echeveste Aizpurua,
  • Hospital Santiago: Ariadna Besga Basterra (baja en junio 2012)
  • Vicomtech: Ivan Macia Oliver, Iñigo Barandiaran Martirena, Andoni Beristain Iraola
  • Ikerbasque: Amaury Lendasse
  • Colaboradores Extranjeros: Dost Ongur, Ann K. Shinn, Vassilis G Kaburlasos, Ajith Abraham, Timothy E Behrens, Saad Jbabdi, Peter Sussner
• duración: 2011-2013
• Type of participation: member of the research group

SAIOTEK 2009

• Investigador Principal: Manuel Graña
• Acronimo SOFLIMRI
• Titulo: Desarrollo basado en software libre de técnicas morfométricas de anatomía computacional para estudio de enfermedades neurodegenerativas
• Importe de la subvención: 32000 euros
• Duracion: 2009-2010
• memoria adicional final
• Type of participation: member of the research group

• Otros proyectos del grupo [10]

Research Areas

• Pattern recognition applied to medical images
• Brain medical image processing
• Gesture recognition systems

Research Questions

• How does the multivariate tensor analysis work using all the deformation tensor information?

• Is there any SOM-based framework for diffusion data modelling?

• Any application of Lattice-Computing on Probabilistic Tractography?

Pending Tasks

• ITK, ANTS...
• OpenMP and MPI
• Multivariate Analysis
• Meditate
• DTI modeling
• Process Ann's DTI dataset
• Add MRI and ML related info pages with literature reviews on this wiki.

articulos de revistas en proceso de redacción

• rsfMRI scalar measures and CAD
• rsfMRI connectivity matrices and CAD

Conferences

"I love deadlines. I especially like the whooshing sound they make as they go flying by." - Douglas Adams

Coming...

Current readings

Books

• Human Brain Function 2nd edition - J Ashburner, K Friston and W Penny PDF completo

• Medical Image Registration - by Joseph V. Hajnal (Editor), Derek L.G. Hill (Editor), David J. Hawkes (Editor)

• Splines - A perfect Fit for Signal and Image Processing

• Insight Into Images

• Numerical Methods for Image Registration - [11]

  @book{mcconnell_applications_1960,
        title = {Applications of Tensor Analysis},
        isbn = {0486603733},
        publisher = {Dover Publications},
        author = {A. J. {McConnell}},
        month = jun,
        year = {1960}
       }

Working articles

• More information in my groupware articles Artículos Image Registration and Working Diaries

Congresos y revistas objetivo

Revistas (ordenadas por factor de impacto)

1- Journal of Magnetic Resonance Imaging

2- Medical Image Analysis

3- IEEE Transactions on Medical Imaging

4- Magnetic Resonance in Medicine

Otras revistas

• Neuroimage

• Computer Assisted Radiology and Surgery

• Neuroinformatics

• Insight Journal

• Midas Journal

• Biomedical Imaging and Intervention Journal

• Brain

• Neural Computing and Applications

• Expert Systems and Applications

• Electronics Letters

• IEEE Transactions on Biomedical Engineering

• Journal of MRI

• Artificial Intelligence in Medicine

• Cybernetics and Systems

• Neuroscience Letters

Congresos

• MICCAI Society

• BIOSTEC

• ISMRM

• SPIE Medical Imaging

• Computer Assisted Radiology and Surgery

• Human Brain Mapping

• Medical Informatics Europe Conference

• WBIR WBIR 2010

• International Symposium on Biomedical Imaging

• More conferences: [12]

Internet Bookmarks

• CBU Imaging Wiki

• Kitware Youtube Channel

• BioInfoBank Library

• MindBoggle - A Project for Human Brain Labeling

• Supplementary Material Document from Klein NeuroImage 2009

• eigenfactor.org - ranking and mapping scientific knowledge

• Debian Neuroscience Repository

Courses

• Functional Magnetic Resonance Imaging: Data Acquisition and Analysis - MIT OpenCourseWare

• Cursos de formación

• Master en Iniciación a la Investigación en Matemáticas

Databases

• OASIS

• INDI - 1000 Functional Connectomes Project

• ADNI

• BrainMap

• Fractional Anisotropy Database

• MIDAS

• ABIDE

• COBRE-Schizophrenia

Research Groups

• Oxford Centre for Functional MRI of the Brain - University of Oxford - JR Hospital - England

• Centre of Medical Image Computing - University College London - Gower Street - Eng. Building

• Structural Brain Mapping Group - University of Jena - Thüringen - central Germany

• Section of Biomedical Image Analysis - University of Pennsylvania

• Max Planck Institute für Hirnforschung

• Laboratorio de Imagen Médica. Unidad de Medicina y Cirugía Experimental - Hospital General Universitario Gregorio Marañón

• McConnell Brain Imaging Centre (BIC) of the Montreal Neurological Institute (MNI) - McGill University

• National Alliance for Medical Image Computing

• Asclepios project - INRIA Sophia-Antipolis

• ODYSSEE research project-team - INRIA Sophia-Antipolis

• Divisions of Bioimaging and MRI Technology - University and ETH Zurich

• Biomedical Imaging Group Rotterdam - Erasmus MC - University Medical Center Rotterdam

• A community portal for MIT brain research - Massachussets Institute of Technology

• Instituto Universitario de Sistemas Inteligentes y Aplicaciones Numéricas en Ingeniería - ULPGC

• Image Processing Lab de la FEI Sao Bernardo do Campo (SP) - Brasil

Utilities

Scientific Writing

• Chapter "How to Write an Introduction" of Professor Glasman-Deal's Science Research Writing For Non-Native Speakers of English ( Ref. )

• Chapter "Writing about methodology" of Professor Glasman-Deal's Science Research Writing For Non-Native Speakers of English

• Customise and improve Matlab plots.

Computer Settings

• Install Cisco VPN client on Ubuntu 8.04

• SPIE LaTEX manuscript templates and writing guidelines

• BibTeX Style Examples

• Impressive - The stylish way of giving PDF presentations

• Install ITK and Kitware software from sources. [13] [14] (for more information ask me)

• Install python wrapper on building ITK from sources.

• Create a 3DSlicer Plugin

• Sync Tomboy Notes

• Push references from JabRef to Lyx

• Página de instalación de FSL en Debian

• Setting up FSL to use a SunGridEngine or computing cluster

• How to install Springer LNCS Style for Lyx

• Automatically Generate a List of Publications for your CV

• Setting up a Ubuntu 10.04.1 cluster (NFS, NIS, Sun Grid Engine, FSL) Giclus10.04 Installation Procedure (PDF File)

• GIC Cluster Presentation

• Git Cheat sheet for Dummies.

Image Processing

• Nomenclatura de los planos de corte en los seres vivos

• NA-MIC Software Repository

• ImageMagick Usage Examples

• FSL VBM How to

• BRAINSFit - Rigid Registration Tool

• Statistical Parametric Mapping

• SPM Programming Intro

• SPM5-Specific code snippets by John Ashburner

• A Quaternion and Rotation Primer

• FMRIB's Diffusion Toolbox - FDT v2.0

• 3D Slicer User Documentation

• Short introduction to DTI analysis

• Automatic Registration Toolbox (ART)

• A Quaternion and Rotation Primer

• Advanced Open Source Tools for Normalization and Neuroanatomy (SyN nonlinear registration algorithm)

• Semi-Automatic and Manual Segmentation of 3D Volumes

• Parallel Python for parallel processing

• Mask creation software for VBM analyses for SPM8

• Preprocessing steps for SPM Analyze images to use them on FSL

• fMRI methods

• Ms. Karla Miller's lecture presentations

• FMRIB Diffusion Toolbox

Pattern Recognition

• My scripts

• Weka How Tos

• Matrices de confusión y otros valores estadísticos

• LIBSVM - A library for Support Vector Machines

• Spider SVM

• Teach Me Data Analysis (Range scaling)

• Neural Networks - A Systematic Introduction

• Some interesting presentations

• Invited speakers for SIAM Conference on Optimization (Modersitzki presentation on image registration)

Real World

• Some useful hints to know about the PhD

• What the Simpsons think about graduate students!!

• Presentación de Luis Ibañez sobre el sin sentido del entorno de "ciencia abierta" en la que trabajamos. ( Página personal de Luis Ibañez en Kitware )

• Collaborative Research Initiatives

• Principios de colaboración abierta en la investigación (2005)

• Preguntas y respuestas sobre la situación Ingeniería Informática - Tratado de Bolonia, con referencias.

• 10 Reasons

• Visita al Instituto Nacional de Pesquisas Espaciais (INPE), Sao José Dos Campos (Brasil), Enero 2009

• Miguel's Photo gallery

Estado burocrático de la tesis

Director

Manuel Graña

Trabajo de investigación aprobado.

Contratos durante los años 2008 y 2009

Beca de Formación de Personal Investigador del Gobierno Vasco para los años 2010, 2011, 2012 y 2013 (todas las renovaciones ya han sido concedidas).