Frederick, MD
Core Facility
The FNLCR Molecular Histopathology Laboratory (MHL) provides comprehensive veterinary pathology support for animal health monitoring, biomarker discovery and validation, drug development, genomics, and proteomics on a cost recovered basis. The MHL is organized into multiple Read More...
Bethesda, MD
Repositories
The CHTN is a unique NCI-supported resource that provides human tissues and fluids from routine procedures to investigators who utilize human biospecimens in their research. Unlike tissue banks, the CHTN works prospectively with each investigator Read More...
Bethesda, MD
Repositories
The National Clinical Trials Network Biospecimen Banks (NCTN) receive, store, and distribute human cancer biospecimens collected on NCTN clinical trials . NCTN Biobanks provide cancer researchers with quality, well-annotated biospecimens and associated clinical information. The NCTN Read More...
ROCKVILLE, MD
Repositories
The Specimen Resource Locator (SRL) is a biospecimen resource database designed to help researchers locate resources that may have the samples needed for their investigational use. This publicly searchable database includes information about biospecimen banks Read More...
Frederick, MD
Repositories
NCI maintains a low temperature repository of implantable in vivo-derived tumors and in vitro-established tumor cell lines from various species, which are available to qualified investigators as a service to the cancer research community. The Read More...
Web Page
Biomarker Discovery with Morphological Context: Changing how tissue specimens are analyzed < https://youtu.be/mVhfZq8ppbc What is Digital Spatial Profiling? GeoMx Digital Spatial Profiler is a novel platform developed by NanoString. Digital Spatial Read More...
Frederick, MD
Core Facility
Molecular Cytogenetics Core Facility facilitates the assessment of structural and numerical genomic changes in pre-cancer and cancer research models. This core provides comprehensive support for the cytogenetic analysis of cells from human and research animal Read More...
Frederick, Maryland
Core Facility
CLIA-Certified Technologies Offered: Fragment Analysis for Micro-satellite Instability Detection, Pharmacoscan Array for Pharmacogenomics, Mutation Detection for PCR and Sanger Sequencing, DNA extraction from whole blood, saliva, FFPE tissues, buccal swabs, nails, hair, PBMCs, buffy coats, Read More...
Web Page
Bioinformatics
03/11/2024 - This class is designed for those who want to extend the basics covered in the Introduction to Quarto for Scholarly Publishing class. In this class you will learn how to format tables, work with Read More...
Web Page
Bioinformatics
Once you have intiated your document, you can get started documenting your analysis. There are three basic components to a quarto document: yaml header (bracketed by --- ) The yaml header or file allows us to Read More...
Web Page
Bioinformatics
more object oriented ( . is an operator and should not be used to name variables) = assignment operator 33 reserved words help("keywords") lists use brackets [] , dictionaries use {} indentation is important (4 spaces) - defines blocks of Read More...
Web Page
Bioinformatics
more object oriented ( . is an operator and should not be used to name variables) = assignment operator 33 reserved words help("keywords") lists use brackets [] , dictionaries use {} indentation is important (4 spaces) - defines blocks of Read More...
Web Page
Bioinformatics
09/22/2025 - The "Data Visualization in R" series focuses on using ggplot2 and the broader tidyverse ecosystem to create visualizations. Attendees will progress from foundational plotting techniques to advanced customization, learning to create multi-faceted Read More...
Web Page
Bioinformatics
01/21/2025 - The "Data Visualization in R" series focuses on using ggplot and the broader tidyverse ecosystem to create insightful and customizable visualizations. It covers key principles of data visualization, from basic plots to Read More...
Web Page
Bioinformatics
09/17/2024 - This hour and half online training will explore the topics of perception and cognition, and how these apply to data visualization. This class will also teach you how to visualize your data using ggplot2. Read More...
Web Page
Bioinformatics
The course will include a series of eight lessons taught in 1-hour blocks over four weeks. Lessons will be on Tuesdays and Thursdays at 1 pm. Each lesson will be followed by an optional 1-hour help Read More...
Web Page
Bioinformatics
Quarto is installed with the latest versions of RStudio. When rendering a Quarto document (.qmd file), the code blocks are processed using either knitr or jupyter , which is converted to markdown. That markdown is then Read More...
Web Page
Bioinformatics
The course will include a series of eight lessons taught in one to one hour and 15 minute blocks over four weeks. Lessons will be on Mondays and Wednesdays at 1 pm. Each lesson will be followed Read More...
Web Page
Bioinformatics
This course is the third and final part of a larger 3-part course designed for novices: This course focuses on the basics of ggplot2, a tidyverse package for data visualization. Attendees will learn the building Read More...
Web Page
Bioinformatics
When rendering a Quarto document (.qmd file), the code blocks are processed using either knitr or jupyter, which is converted to markdown. That markdown is then converted to the final format using pandoc. Image modified Read More...
Web Page
Bioinformatics
When rendering a Quarto document (.qmd file), the code blocks are processed using either knitr or jupyter, which is converted to markdown. That markdown is then converted to the final format using pandoc. Image modified Read More...
Web Page
Bioinformatics
### Load the libraries ```{{r}} #| message: false library(EnhancedVolcano) library(dplyr) ``` ### Load the data from command line arguments The data were filtered to remove adjusted p-values that were NA; these were genes excluded by `DESeq2` as Read More...
Web Page
Bioinformatics
R Console: library(quarto) quarto_render("Volcano_example.qmd") Shell: quarto render Volcano_example.qmd Note Enable caching of one or more cell blocks to speed up rendering. There are additional strategies here.
Web Page
Bioinformatics
08/25/2025 - This one hour and half online training is designed for those who create reproducible projects and also want to extend the basics of R Markdown and apply those skills in Quarto . Quarto Read More...
Web Page
Bioinformatics
03/04/2024 - This class is designed for those who want to extend the basics of R Markdown and apply those skills in Quarto. Quarto is an open-source scientific and technical publishing system that offers multilingual programming Read More...
Web Page
Bioinformatics
Synthesize what we have learned. Create a publishable plot from start to finish. For this exercise, we are going to use the information we have learned to create a volcano plot of our differential expression Read More...
Web Page
Bioinformatics
Integrate previously learned ggplot2skills including data mapping, geoms, labels, scales, and themes to construct a complete visualization workflow. Design and produce a polished, publication-ready plot from start to finish, making informed choices about plot Read More...
Web Page
Bioinformatics
Read the documentation! Know what the functions you use actually do. Read package vignettes. Keep your code neat and clean. You can do this by following a style guide, for example, the tidyverse style guide. Read More...
Web Page
Bioinformatics
You can merge several existing templates into one “Multi-Node” template (some parameters are shared across all templates). To do that, select your pre-arranged templates, right-click on one of them and choose the Create template option. Read More...
Web Page
Bioinformatics
### Load the libraries ```{{r}} library(EnhancedVolcano) library(dplyr) ``` ### Load the data from command line arguments We are also filtering the data to remove adjusted p-values that were NA; these were genes excluded by `DESeq2` as Read More...
Web Page
Bioinformatics
Without adding text, images, links, and other components, the Quarto document wouldn't be very useful. Prose can be added using markdown language; again, see the basics here. # Volcano Quarto Demonstration Here we will create Read More...
Web Page
Bioinformatics
Read the documentation! Know what the functions you use actually do. Read package vignettes. Practice! The more you engage with R programming the more proficient you will become. With time, handling error messages will become Read More...
Web Page
Bioinformatics
The yaml header or file allows us to control document level or project level options. Here, we can specify formats, themes, executable options, and others. --- title: "Volcano" author: "Alex Emmons, Ph. Read More...
Web Page
Bioinformatics
Course Overview Welcome to the R Introductory Series! A series of introductory lessons in R for scientists. This course will include a series of lessons for individuals new to R or with limited R experience . Read More...
Web Page
Bioinformatics
Objectives To explore Bioconductor, a repository for R packages related to biological data analysis. To learn about options for report generation with R: RMarkdown and Quarto. Introducing Bioconductor Bioconductor is both an open source project Read More...
Web Page
Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Learning objectives: 1. Understand what a sequence alignment is and how different algorithms can effect alignments. 2. Learn how scoring matrices and gap penalties (gap Read More...
Web Page
Bioinformatics
Course Overview Welcome to the R Introductory Series 2023 A series of introductory lessons in R for scientists. This course will include a series of lessons for individuals new to R or with limited R experience . Read More...
Web Page
Bioinformatics
05/06/2021 - Presenter : Adam J Gayoso, Streets and Yosef Groups at UC Berkeley Abstract : Probabilistic models have demonstrated state-of-the-art performance for many single-cell omics data analysis tasks, including dimensionality reduction, clustering, differential expression, annotation, removal of Read More...
Web Page
Bioinformatics
Learning Objectives Learn about popular programming languagues in bioinformatics Compare advantages and disadvantages of Python and R Discuss what you will need to learn to use these languages Discuss learning resources Choosing a programming language Read More...
Web Page
Bioinformatics
Learning Objectives Learn about popular programming languagues in bioinformatics Compare advantages and disadvantages of Python and R Discuss what you will need to learn to use these languages Discuss learning resources Choosing a programming language Read More...