2024
Quantum Chemistry: What is it and What is it Good for?
FRCE and Computational ScienceTue, Nov 26 · 11:00 AM - 12:00 PM
Building 549, Conference Room A, NCI-Frederick
Presenter: Joseph Ivanic, Ph.D., Advanced Biomedical Computational Science This talk will introduce quantum chemistry and how it is useful for the modeling of therapeutic and diagnostic agents. This session is geared towards beginners. This will be a hybrid event. To register, please...
Statistical Considerations for Animal Model Experiments
Statistics for LunchTue, Nov 12 · 12:00 PM - 1:00 PM
Building 549, Conference Room A, NCI-Frederick
Presenter: Duncan Donohue, PhD, Statistical Consulting and Scientific Programming Group, Computer and Statistical Services, National Cancer Institute at Frederick, Data Management Services, Inc. a BRMI company. We will discuss statistical considerations in planning, executing, and interpreti...
Notable RNA Structure Prediction Tools on FRCE and Beyond
FRCE and Computational ScienceTue, Oct 22 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Wojciech (Voytek) Kasprzak, Advanced Biomedical Computational Science Popular structure prediction program AlphaFold3 and its competitor Chai-1 recently added capabilities to predict 3D RNA structures straight from sequence input. In this talk, we will discuss some test cases for...
Statistical approaches to detect pathogenic variants of the BRCA2 oncogene
Statistics for LunchTue, Oct 8 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Alexander Y. Mitrophanov, PhD (ABCS/FNLCR) We will cover recently developed statistical approaches to the classification of BRCA2 variants using the functional-assay data generated by our NCI collaborators (Dr. Sharan’s lab). Our main objective is to illustrate how statistical m...
Introduction to linear mixed-effects modeling
Statistics for LunchTue, Aug 13 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Alex Mitrophanov, PhD in Mathematics, Senior Statistician at FNLCR/NCI/NIH. This session will cover the basics of linear mixed-effects modeling as a method of regression analysis for clustered data. Special emphasis will be on the ideas behind random-intercepts and random-slopes modelin...
Cloud or HPC? Scaling bioinformatics pipeline using cloud and HPC resources using enterprise data science platforms.
FRCE and Computational ScienceTue, Jul 23 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: George Zaki, Ph.D., Director, Applied Scientific Computing, Biomedical and Computational Science Directorate In this presentation, we will demonstrate how to use enterprise data science platform to configure, run, share, and scale downstream bioinformatics and image analysis pipel...
Introduction to Statistical Resampling Methods
Statistics for LunchTue, Jun 11 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Duncan Donohue, PhD, Statistical Consulting and Scientific Programming Group, Computer and Statistical Services, National Cancer Institute at Frederick, Data Management Services, Inc. a BRMI company. This talk will cover the basics of statistical resampling methods such as bootstr...
Whole Slide Pathological Image (WSI) Analysis using FRCE
FRCE and Computational ScienceTue, May 28 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Dorsa Ziaei, Ph.D., Computational Scientist II, Imaging and Visualization Group (IVG), Advanced Biomedical Computational Science (ABCS) In this session, we will explore how machine learning can be used to analyze Whole Slide pathological Images (WSIs). We will showcase how to util...
Effect Size, p-value, and Accuracy
Statistics for LunchTue, May 14 · 12:00 PM - 1:00 PM
Building 549, Conference Room B, NCI-Frederick
Presenter: Brian Luke, PhD, Advanced Biomedical Computational Science This presentation will explain the difference between the mean and standard deviation of a set of values and the standard error of the mean. The parameters involved in comparing two normally distributed populations (Cases...
Practical use case of FRCE cluster utilities: Exploring the metagenome of 794 lichen holobionts
FRCE and Computational ScienceTue, Apr 23 · 12:00 PM - 1:00 PM
Building 549, Conference Room B, NCI-Frederick
Presenter: Dr. Sam Waterworth, Molecular Targets Program, NCI. Crunching of large data requires large resources. Exploration of holobiont metagenomes is considered a “big data” project and here I’ll be describing how I used the FRCE cluster to explore 794 metagenomes simultaneously to assess the b...
Organizing and documenting NGS pipelines on GitHub
Programmer's CornerFri, Apr 12 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Kelly Sovacool, PhD, Bioinformatics Software Engineer, CCR Collaborative Bioinformatics Resource (CCBR). GitHub is a powerful platform for tracking, sharing, and collaborating on software projects of all kinds. Whether you’re a bioinformatics analyst, a software engineer, or a biologist...
Parametric vs. non-parametric statistics
Statistics for LunchTue, Apr 9 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Duncan Donohue, PhD, Statistical Consulting and Scientific Programming Group, Computer and Statistical Services, National Cancer Institute at Frederick, Data Management Services, Inc. a BRMI company. In this talk, we will cover what differentiates parametric and non-parametric sta...
Maximizing Computational Power: Unleashing the Potential of FRCE GPUs for Advanced AI Research, NLP, and Large Language Models
FRCE and Computational ScienceTue, Mar 26 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Mohammad Alodadi, PhD, Computational Scientist. Bioinformatics and Computational Science (BACS) Directorate, Advanced Biomedical Computational Science (ABCS). In this session, we will discuss the potential of GPUs, and when and why to use GPUs on the Frederick Research Computing Environ...
Web design hacks: Color Tuning and The Golden Ratio
Programmer's CornerTue, Mar 19 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Rob Guthridge, Scientific Web Programming Group (SWPG) This session will explore two basic design principles that will enhance your existing web designs and layouts. No prerequisites are required. This will be a hybrid event. The Webex link can be found here: https://cbiit...
Using Containers in Bioinformatics Analyses
FRCE and Computational ScienceTue, Feb 27 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Vishal Koparde, PhD, Bioinformatics Technical Lead at Collaborative CCR Bioinformatics Resource, NCI This session will cover what are containers, and why and how to use them in your Bioinformatics workflows. We will review best practices, basic commands, and useful resources. This...
Overview of Statistics Training Resources
Statistics for LunchTue, Feb 13 · 12:00 PM - 1:00 PM
Building 549, Conference Room B, NCI-Frederick
Presenter: Natasha Pacheco, PhD, Advanced Biomedical Computational Science. The first half of the session will briefly review statistics training resources available to the NCI based on feedback from previous Statistics for Lunch sessions. For the second half, we will have an open forum for...
Exploring the Flavorful World of Databases
Programmer's CornerTue, Jan 16 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Anney Che, M.S., Advanced Biomedical Computational Science. In this presentation we will go through the rich variety of database types, from traditional relational to cutting-edge NoSQL, uncovering how each 'flavor' adds its unique spice to the world of data management. Discover the key...
Introduction to Sample Size and Statistical Power
Statistics for LunchTue, Jan 9 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Duncan Donohue, PhD, Statistical Consulting and Scientific Programming Group, Computer and Statistical Services, National Cancer Institute at Frederick, Data Management Services, Inc. a BRMI company. This talk will cover the basics of what affects and how to compute statistical power, s...
2023
Protein Structure Prediction on FRCE
FRCE and Computational ScienceTue, Nov 28 · 12:00 PM - 1:00 PM
Building 549, Conference Room B, NCI-Frederick
Presenter: David R. Bell, Advanced Biomedical Computational Science Recent advances in protein structure prediction methods such as AlphaFold2 and ESMFold has enabled protein structure prediction to achieve experimental accuracy in certain cases. In this talk, we will discuss the advantages...
Missing Values and Data Transformations
Statistics for LunchTue, Nov 14 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Duncan Donohue, PhD, Statistical Consulting and Scientific Programming Group, Computer and Statistical Services, National Cancer Institute at Frederick, Data Management Services, Inc. a BRMI company. This talk will cover how to maximize the utility of your data by handling missing value...
Introduction to Next-Generation Sequencing Analysis on FRCE
FRCE and Computational ScienceTue, Oct 24 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenters: Shaojun Xie, PhD, Sulbha Choudhari, PhD, and Ying Wu, PhD, Sequencing Facility Bioinformatics Group, Advanced Biomedical and Computational Science, Frederick National Laboratory for Cancer Research. In this session, we will provide the overview of the Next-Generation Sequencing (...
Overview of NCI’s GitHub Enterprise Capabilities and Best Practices
Programmer's CornerTue, Oct 17 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenters: Ben Arculus, Sr. Customer Success Architect, GitHub; Brian Smith, Sr. Customer Success Manager, GitHub; Eric Johnson, Director of Public Sector Field Services, GitHub (tentative). This presentation will review the GitHub features and capabilities available today for users through...
What is a P-Value and What Statistical Test Should I Use?
Statistics for LunchTue, Oct 10 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Brian Luke, Ph.D., Advanced Biomedical Computational Science group. In this talk, we will discuss what is a p-value and examples of p-value hacking. We will also review the basics of several statistical tests and when to use them. There are no prerequisites for attending this talk. ...
Getting Started with DevOps: Exploring Git, Jenkins and SonarQube
Programmer's CornerTue, Sep 19 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Presenter: Kiran Amirineni, Manager Software DevOps is a transformative approach to software development that combines collaboration between development and IT operations teams to streamline the entire software delivery process. Git, a popular version control system, enables efficient code m...
Batch Correction and Sample Randomization
Statistics for LunchTue, Sep 12 · 12:00 PM - 1:00 PM
Building 549, Conference Room A, NCI-Frederick
Presenter: Duncan Donohue, PhD, Statistical Consulting and Scientific Programming Group, Computer and Statistical Services, National Cancer Institute at Frederick, Data Management Services, Inc. a BRMI company. In this talk we will discuss how and why to minimize and correct for batch effects in o...
Frederick Research Computing Environment (FRCE): A "Quick-Start" Guide to the SLURM Cluster Environment
FRCE and Computational ScienceTue, Aug 22 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick
Video recording password: FRCE_Aug2023 Presenters: Natasha Pacheco, PhD, Advanced Biomedical Computational Science (ABCS), Frederick National Laboratory for Cancer Research, and Samuel Walters-Nevet, Statistical Consulting and Scientific Programming Services, Frederick National Laboratory...
Introduction to Data Exploration
Statistics for LunchTue, Aug 15 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick Campus
Presenter: Duncan Donohue, PhD, Statistical Consulting and Scientific Programming Group, Computer and Statistical Services, National Cancer Institute at Frederick, Data Management Services, Inc. a BRMI company. This talk will cover what to do when you first start looking at a new dataset. We will...
Simplify Your Developer Workflow Using Git
Programmer's CornerTue, Aug 8 · 12:00 PM - 1:00 PM
Building 549, Executive Board Room, NCI-Frederick Campus
Presenter: Danny Watson, Advanced Biomedical Computational Science. During this interactive session, we’ll stick to the technical basics and talk about how developers of all skill levels can use Git to improve their workflows, even if they already use Git. We’ll cover topics like: crafting simple...