FreeSurfer Tutorials
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The official MGH / Harvard tutorial page for FreeSurfer. The FreeSurfer group has provided and designed a series of tutorials for using FreeSurfer and for getting acquainted with the concepts needed to perform its various modes of analysis and processing of MRI data. The tutorials are designed to be followed along in a terminal window where commands can be copy/pasted instead of typed.
Awesome Jupyter Widgets (for building interactive scientific workflows or science gateway tools)
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A curated list of awesome Jupyter widget packages and projects for building interactive visualizations for Python code
Introduction to Vizualization on HPC Using Python
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This workshop has an introduction to the concepts of visualization followed by hands on exercises. The concepts section has Speaker Notes, and the hands on section has an accompanying Jupyter notebook.
The workshop is one in a series of Introduction to HPC
Gaussian 16
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Gaussian 16 is a computational chemistry package that is used in predicting molecular properties and understanding molecular behavior at a quantum mechanical level.
Bash shell tutorial
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Training materials for using the bash (and zsh) shell.
Natural Language Processing with Deep Learning
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CS244N is a renowned natural language processing course offered by Stanford University and taught by Christopher Manning. It covers a wide range of topics in NLP, including language modeling, machine translation, sentiment analysis, and more. It teaches both foundational concepts and cutting-edge research to gain a comprehensive understanding of NLP techniques and applications.
Scikit-Learn: Easy Machine Learning and Modeling
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Scikit-learn is free software machine learning library for Python. It has a variety of features you can use on data, from linear regression classifiers to xg-boost and random forests. It is very useful when you want to analyze small parts of data quickly.
RMACC Website
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Rocky Mountain Advanced Computing Consortium Website
OpenMP and Multithreaded Jobs in GRASS
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Techniques and support for multithreaded geospatial data processing in GRASS.
Samtools Documentation
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Samtools is a suite of programs for interacting with high-throughput sequencing data, especially in the SAM/BAM format. It offers various utilities for processing, analyzing, and managing sequence data generated from next-generation sequencing (NGS) experiments. Samtools is widely used in bioinformatics and genomics research for tasks such as read alignment, variant calling, and data manipulation.
Expanse Home Page
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Expanse at SDSC is a cluster designed by Dell and SDSC delivering 5.16 peak petaflops, and offers Composable Systems and Cloud Bursting.
ACCESS - Video for new ACCESS users
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This is a short video on how to exchange ACCESS credits and connect to Jetstream 2 (please note this was created for Duke users but applies to all) .
ACCESS HPC Workshop Series
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Monthly workshops sponsored by ACCESS on a variety of HPC topics organized by Pittsburgh Supercomputing Center (PSC). Each workshop will be telecast to multiple satellite sites and workshop materials are archived.