Usuario:Oier.echaniz

Outside

Inside

• Contact:

• My PGP key: alexsavio_pgp.key

Material

Seguimientos

Pedradas

Surveys (wiki under construction)

Friday Sessions

Software

• Macuto: a Python module with basic but useful functions and also MRI Analysis and Classification Tools.

• 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.

Research Areas

• Pattern recognition applied to medical images
• Medical image processing

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.

Conferences

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

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. [1] [2] (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

Working Diaries

Pedradas de Alex

Seguimientos