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PennLINC Lab Manual
Computation Basics
A Typical Setup for Science
SSH Keys
Best practices for coding for scientific computing
VPNs
Using Containers
Informatics Onboarding (Legacy)
CUBIC
Getting + setting up your CUBIC account
Project Directories
Configuring a CUBIC account
Data Transfer and Analysis
Using R and Python
Using "screen" on CUBIC
Job submission on CUBIC
Getting data from flywheel
Additional information
Tutorials
Tutorial Template
Regional Quantification
Updating these Docs
Curating ASL Data
Creating BIDS Events TSVs from ITC EPrime Files
Surfaces and Ciftis
InDesign Tutorial
Data Use Agreements Tutorial
Figure-Making Guidelines
Scheduling and Booking Rooms
Project Workflow
Project Setup
Stages of a Project
Project Reproducibility Guide
Project Documentation
Common Methods
BigBrain
Generalized Additive Models (GAMs)
Gradients
Harmonization
Haufe Transforms
Meta-analysis
Setup
Database Search
Abstract Screening
Full-text Screening
Data Extraction
ALE
NIMARE
Neurosynth 2.0
NetNeuroTools
NeuroMaps
Neuroimaging Data Processing Tools
Non-negative Matrix Factorization (NMF)
Partial Least Squares (PLS)
Personalized Functional Networks (PFNs)
Ridge Regression
Spin Tests
abagen
Datasets
Data Workflows
Data Cycle
Data Sharing
Archived Documentation
The Way
Getting PMACS Static Data
Fetching Your Data
Curating BIDS Datasets
Available PMACS Static Datasets
Running Pipelines with DataLad
Collaboration & Sharing
CUBIC-flywheel
CUBIC-X11GUI
Projects
PMACS
Flywheel
Lab Website
Edit on GitHub
Common Methods
Meta-analysis
Meta-analysis
Here, you will find an overview of coordinate-based meta-analyses of published studies.
Table of contents
Setup
Database Search
Abstract Screening
Full-text Screening
Data Extraction
ALE
NIMARE
Neurosynth 2.0