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Bioinformatics
03/19/2025 - Please note: Registration is required to get the Meeting Link for this event. Please pre-register. The Human Tumor Atlas Network (HTAN) is a National Cancer Institute (NCI)-funded initiative to construct 3-dimensional atlases of Read More...
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Bioinformatics
04/09/2025 - Please note: Registration is required to get the Meeting Link for this event. Please pre-register. The Human Tumor Atlas Network (HTAN) is a National Cancer Institute (NCI)-funded initiative to construct 3-dimensional atlases of Read More...
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Bioinformatics
04/02/2025 - Please note: Registration is required to get the Meeting Link for this event. Please pre-register. The Human Tumor Atlas Network (HTAN) is a National Cancer Institute (NCI)-funded initiative to construct 3-dimensional atlases of Read More...
Bethesda, MD
Repositories
Trans NIH Facility
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
Collaborative
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...
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Bioinformatics
08/31/2022 - Users will learn how to: • Upload their dataset (RNA-seq, scRNA-seq, proteomics, metabolomics and more) and perform interactive core/pathway analysis in IPA • Understand the different result types produced (pathways, key regulators, impact on biological Read More...
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Bioinformatics
02/02/2021 - Register In this training, the attendees will learn how advanced pathway and network biology algorithms from the Computational Biology Methods for Drug Discovery (CBDD) toolkit can be applied to a broad range of OMICs Read More...
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Bioinformatics
05/19/2025 - Immunotherapy has the potential to revolutionize the way we treat cancer, but a key challenge has been finding ways to tailor that therapy to the right patient at the right time. Attend this webinar, Read More...
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Bioinformatics
05/14/2025 - Please note: Registration is required to get the Meeting Link for this event. Please pre-register. The Human Tumor Atlas Network (HTAN) is a National Cancer Institute (NCI)-funded initiative to construct 3-dimensional atlases of Read More...
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Bioinformatics
01/14/2025 - Join leaders from NCI’s Human Tumor Atlas Network (HTAN) to hear about the program’s collaborative efforts to develop comprehensive atlases incorporating cellular, molecular, and histological dimensions across various cancer types and stages. Read More...
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Bioinformatics
06/14/2022 - In this webinar, NCI Program Director Dr. Juli Klemm will give an overview of two trans-NCI programs: Informatics Technology for Cancer Research (ITCR), and the Serological Sciences Network (SeroNet). The ITCR Program funds investigator-initiated Read More...
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Bioinformatics
01/11/2022 - Please plan to attend the Earl Stadtman Investigator Program search seminar by: Augustin Luna, Ph.D. Harvard Medical School Dr. Luna's research focuses on the analysis of complex biological systems to understand and Read More...
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Bioinformatics
05/24/2021 - Speaker: Maxwell Lee
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Bioinformatics
04/26/2021 - Speaker: Maxwell Lee
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Bioinformatics
11/20/2019 - https://cbiit.webex.com/recordingservice/sites/cbiit/recording/faa203bfaa1648f19e82b0d3d01aa881/playback
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Bioinformatics
08/20/2019 - https://cbiit.webex.com/recordingservice/sites/cbiit/recording/846e911c453c4aec8350f4c29cc1455d/playback
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Confocal
Sign-Up for Microscopes and Computers Sign-up for EIB Microscopy Facility microscopes and image processing workstations is mandatory – please e-mail facility manager (“Contact” tab) and include your preferred date/time etc. Your request will be confirmed Read More...
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Confocal
2024 Date: Tuesday, October 15, 2024 Time and Location: 11 am EST, ZOOM (INVITATION BY LMIG LIST SERVER) Speaker: Dr. Diego Presman (U Buenos Aires) Title: “Insights on Glucocorticoid Receptor Activity Through Live Cell Imaging” Summary: Eucaryotic transcription factors ( Read More...
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Bioinformatics
07/25/2025 - Dr. Lee Lancashire is a data scientist with over 20 years of experience in machine learning and statistics, currently serving as Head of Data Science at Every Cure. He earned his PhD specializing in artificial Read More...
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Confocal
Training Contact the LCBG Microscopy Core to discuss your experiment: Meet with Ross Lake, Core Head, to discuss your specific project. If the project is feasible, schedule an appointment to receive training and use the Read More...
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Confocal
BookIt The NCI Microscopy Core is using a new system to reserve a microscope. Use this link to access the BookIt software. Click on the NIH Login to sign in using your NIH PIV ID Read More...
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Bioinformatics
To take full advantage of R, you need to install R packages. R packages are loadable extensions that contain code, data, documentation, and tests in a standardized shareable format that can easily be installed by Read More...
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Bioinformatics
05/23/2024 - During this virtual conversation of the Cancer Moonshot Seminar Series, Dr. Kai Tan, an investigator with the Human Tumor Atlas Network , and Liz Salmi, a co-investigator and patient advocate with the Participant Engagement and Read More...
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Bioinformatics
02/21/2024 - Dear colleagues, The Bioinformatics and Computational Biosciences Branch (BCBB) at NIAID invites you to join us for in-person hands-on workshops that will explore biovisualization techniques. Developers of UCSF ChimeraX and Cytoscape will be on Read More...
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Bioinformatics
To take full advantage of R, you need to install R packages. R packages are loadable extensions that contain code, data, documentation, and tests in a standardized shareable format that can easily be installed by Read More...
Web Page
Bioinformatics
Both a computational language and environment for statistical computing and graphics. Open-source and widely used by scientists, not just bioinformaticians. Extensible. Maintained by a network of collaborators - The R Core Team A resource for Read More...
Web Page
Bioinformatics
As a reminder, R packages are loadable extensions that contain code, data, documentation, and tests in a standardized shareable format that can easily be installed by R users. The primary repository for R packages is Read More...
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Bioinformatics
If you are already logged in, exit the remote connection and reconnect. Remember, you must be on the NIH network. {{Sdet}} Solution{{Esum}} ssh username@biowulf.nih.gov {{Edet}}
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Bioinformatics
Globus (https://hpc.nih.gov/storage/globus.html) HPCDME BOX OneDrive (s)FTP Network Drives Flash Drives
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Bioinformatics
08/29/2023 - In this introductory session, we will look at a biologist-friendly way to analyze RNAseq data in Qlucore, integrated GSEA, and then taking results into NDEx + Cytoscape for biological network analysis.
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Bioinformatics
08/22/2023 - In this introduction webinar, broken down into two 40 minute sessions one week apart, we will look at a biologist-friendly way to analyze RNAseq data in Qlucore, integrated GSEA, and then taking results into NDEx + Read More...
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Bioinformatics
wget The non-interactive network downloader curl transfer a URL
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Bioinformatics
To take full advantage of R, you need to install R packages. R packages are loadable extensions that contain code, data, documentation, and tests in a standardized shareable format that can easily be installed by Read More...
Web Page
Bioinformatics
To connect to Biowulf, we use a secure shell (SSH) protocol. used to open an encrypted network connection between two machines, allowing you to send & receive text and data without having to worry about Read More...
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Bioinformatics
released in 1993 a computational language and environment for statitical computing and graphics. complex statistical functions easily accessible easy to get started, but more difficult to learn Key features: open-source extensible (Packages on CRAN (> 19,000 packages), Read More...
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Bioinformatics
released in 1993 a computational language and environment for statitical computing and graphics. complex statistical functions easily accessible easy to get started, but more difficult to learn Key features: open-source extensible (Packages on CRAN (> 19,000 packages), Read More...
Web Page
Bioinformatics
A dendrogram (or tree diagram) is a network structure and can be used to visualize hierarchy or clustering in data. --- R Graph Gallery
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Bioinformatics
A dendrogram (or tree diagram) is a network structure and can be used to visualize hierarchy or clustering in data. --- R Graph Gallery
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Bioinformatics
A dendrogram (or tree diagram) is a network structure and can be used to visualize hierarchy or clustering in data --- R Graph Gallery https://youtu.be/h0e2HAPTGF4
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Bioinformatics
To take full advantage of R, you need to install R packages. R packages are loadable extensions that contain code, data, documentation, and tests in a standardized shareable format that can easily be installed by Read More...
Frederick, MD
Core Facility
The centrally funded Statistics team within the Advanced Biomedical Computational Science group at the Frederick National Lab provides statistical consultation and data analysis support for NCI laboratories. We have broad-range expertise in biomedically relevant areas Read More...
Bethesda, MD
Repositories
Trans NIH Facility
With specimens that span neurological, neuropsychiatric, and neurodevelopmental diseases and disorders, the NBB serves as a central point of access to the world-class collections of our six biorepositories. In addition, the NBB provides researchers with Read More...
Charlottesville, VA
Repositories
Trans NIH Facility
The Mid-Atlantic CHTN is one of six participating divisions of the Cooperative Human Tissue Network (CHTN) and is based in the Pathology Department at the University of Virginia. While primarily a resource for cancer researchers, Read More...
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CREx News & Updates March 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight NIA Nonhuman Primate Core The NIA Nonhuman Primate Core supports multi-disciplinary translational aging projects for Read More...
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Confocal
Our Team Tatiana S. Karpova Ph.D.Core Headkarpovat@nih.govBuilding 41, Room C615240-760-6637 David A. Ball Ph.D.Core Biologistballa@nih.govBuilding 41, Room B114D240-760-6577 Mohamadreza Fazel, Ph.D.Core Biologistmohamadreza. Read More...
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Confocal
2024 Coutinho, L. L., Femino, E. L., Gonzalez, A. L., Moffat, R. L., Heinz, W. F., Cheng, R. Y. S., Lockett, S. J., Rangel, M. C., Ridnour, L. A. & Wink, D. A. NOS2 and Read More...
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Confocal
Training We recommend that users become familiar with the principals of fluorescence labeling and optical microscopy before arranging for training. We recommend the following sites for learning about microscopy: Introductions to Fluorescence Microscopy Fluorescence Labeling Read More...
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Confocal
Research Mission The goal of OMAL’s research is to understand molecular mechanisms driving carcinogenesis and the reversal of this process through treatment, by utilization and advancement of optical microscopy techniques. These techniques include multiplex Read More...
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Bioinformatics
05/16/2025 - This one-day in-person NIH AI Symposium will bring together researchers from a broad range of disciplines to share their AI-related research, with the goal of disseminating the newest AI research, providing an opportunity to Read More...
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Bioinformatics
nf-core is a community effort to generate a curated set of standardized, best-practice, reproducible, documented, NGS analysis pipelines. All these workflows are built using the versatile workflow manager, Nextflow , and have been released under the Read More...
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Bioinformatics
01/22/2025 - Alzheimer’s Disease (AD) presents significant challenges in prevention and treatment despite decades of research advancements. Innovative AI/ML approaches enable analysis of real-world data sources, such as electronic health records (EHRs) Read More...
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Bioinformatics
01/08/2025 - This three hour online training will focus on getting started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) . IPA enables you to quickly identify biological relationships, mechanisms, pathways, functions and Read More...
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Bioinformatics
11/13/2024 - In this webinar, Dana-Farber Cancer Institute’s Dr. Renato Umeton will explore the transformative journey of applying artificial intelligence (AI) solutions at scale, and in full compliance, bridging the gap between Big Read More...
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Bioinformatics
10/15/2024 - On October 15th-16th, 2024, the NCI Office of Data Sharing (ODS) is hosting the Annual Data Sharing Symposium titled Driving Cancer Advances through Impactful Research inside the Clinical Read More...
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Bioinformatics
07/19/2024 - The molecular mechanisms underlying many types of cancer involve aberrances in trans-acting factors and their binding to cis-regulatory elements to regulate gene expression. Techniques such as ChIP-seq, DNase-seq, and ATAC-seq are commonly used to Read More...
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Bioinformatics
06/25/2024 - Register for the June Emerging Technologies Seminar to hear from Dr. Dana Pe’er of the Memorial Sloan Kettering Cancer Center. She will describe new bioinformatics tools for exploring the complex tumor Read More...
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Bioinformatics
06/14/2024 - Data Sharing and Reuse Seminar Series Please join us for the June Data Sharing and Reuse Seminar where Micahel Schatz, Ph.D. will be presenting "BioDIGS: BioDiversity and Informatics for Genomics Scholars. This Read More...
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Bioinformatics
05/20/2024 - Hybrid (in-person location in Rockville, MD) Virtual attending via WebEx Meeting, link will be available two weeks prior to the meeting date . Attend the 2024 Co-Clinical Imaging Research Resource Program (CIRP) Read More...
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Bioinformatics
05/17/2024 - The NIH Artificial Intelligence (AI) Symposium will take place on Friday, May 17th, 2024, in Masur Auditorium in Building 10 on the Bethesda NIH campus. This event is open to all NIH members - registration and Read More...
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Bioinformatics
05/13/2024 - This in-person workshop will focus on data wrangling using tidy data principles. Tidy data describes a standard way of storing data that facilitates analysis and visualization within the tidyverse ecosystem. There will be a Read More...
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Bioinformatics
04/21/2024 - Looking for an introduction to artificial intelligence (AI) or an opportunity to expand on what you already know? Attend this workshop hosted by the NIH-funded Bridge2AI CHoRUS network and the University of Florida Read More...
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Bioinformatics
R is both a computational language and environment for statistical computing and graphics. It is open-source and widely used by scientists, not just bioinformaticians. Base packages of R are built into your initial installation, but Read More...
Web Page
Bioinformatics
R packages are loadable extensions that contain code, data, documentation, and tests in a standardized shareable format that can easily be installed by R users. CRAN = the primary repository for R packages. To install a Read More...
Web Page
Bioinformatics
Welcome! Welcome to the R Introductory Series! Who: Novices and beginners\ What: A course series introducing R and RStudio. This course will introduce the foundational skills necessary to begin to analyze and visualize data in Read More...
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Bioinformatics
01/19/2024 - Trey Ideker, Ph.D., is a professor of medicine, bioengineering, and computer science, and former chief of genetics at the University of California San Diego (UCSD). Additionally, he is director or co-director of the Read More...
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Bioinformatics
Load in a tab delimited file (file_path= "./data/WebexSession_report.txt") using read_delim() . You will need to troubleshoot the error message and modify the function arguments as needed. {{Sdet}} Solution } library ( Read More...
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Bioinformatics
12/11/2023 - This presentation will provide a one-hour introduction to The AMARETTO software toolbox: multimodal and multiscale circuit-, network-, and graph-based fusion of multi-omics, clinical, imaging, and perturbation data across studies of patients, etiologies and model Read More...
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Bioinformatics
ORA and FCS discard a large amount of information. These methods use gene sets, and even if the gene sets represent specific pathways, structural information such as gene product interactions, positions of genes, and types Read More...
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Bioinformatics
Provides a gene-centric view which lists the genes and their associated annotation terms... -- DAVID help documents See https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4717906/ for difference between pathway and network analysis DAVID Read More...
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Bioinformatics
You must be on VPN (Virtual Private Network) or the NIH campus internet to access Biowulf. Request VPN at NCI . If you have a Biowulf account but have not used it in 60 days, please send Read More...
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Bioinformatics
Access the NIH network; this will require you to VPN if off campus. Connect to Biowulf ssh user_name@biowulf.nih.gov where user_name is your NIH username. Use sinteractive to work on an Read More...
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Bioinformatics
Logging into Biowulf You must be on VPN (Virtual Private Network) or the NIH campus internet to access Biowulf. Request VPN at NCI . If you have a Biowulf account but have not used it in 60 Read More...
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Bioinformatics
There are many databases devoted to relating genes and gene products to pathways, processes, and other phenomenon. Again, the following is not meant to be a comprehensive list. Kyoto Encyclopedia of Genes and Genomes (KEGG) Read More...
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Bioinformatics
Biostars on Biowulf To complement this course, there is a module available on Biowulf with installed programs associated with the Biostar Handbook. During class, we will work on the command line on the GOLD system Read More...
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Bioinformatics
Lesson 5 Practice The following can be used to practice skills learned in Lesson 5. Login to Biowulf If you are already logged in, exit the remote connection and reconnect. Remember, you must be on the NIH Read More...
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Bioinformatics
07/27/2023 - This new webinar will be covering and discussing the host responses to vaccines with invited speakers Dr. Oliver He and Dr. Guanming Wu. During the hour long webinar, Vaccine Induced Gene Expression Analysis Tool ( Read More...
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Bioinformatics
To connect to Biowulf, you must be on the NIH network, either on campus or via VPN. We will then connect using an ssh protocol. Open your terminal if on a mac or the command Read More...
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Bioinformatics
05/31/2023 - Please join us on May 31 when Harvard University’s John Quackenbush, Ph.D., will present “ Why Networks Matter: Embracing Biological Complexity. ” Dr. Quackenbush will share multiple examples illustrating the importance of network models. He Read More...
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Bioinformatics
05/25/2023 - Dr. Katherine Janeway is a pediatric hematologist-oncologist and investigator at the Dana-Farber Cancer Institute with a research focus of pediatric sarcomas. With her presentation "Count Me In: Partnering with Patients to Define the Read More...
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Bioinformatics
March 30, 1 - 2 PM Building a Mind for Cancer Trey Ideker, Ph.D. University of California San Diego Professor, Department of Medicine Adjunct Professor, Departments of Bioengineering and Computer Science Co-Director, Bioinformatics and Systems Biology PhD Read More...
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Bioinformatics
02/23/2023 - In this session we will go over a visual, dynamic, and interactive way to work with OMICs data using public leukemia GEO gene expression data sets. We will approach the data with confirmatory and Read More...
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Bioinformatics
R is both a computational language and environment for statitical computing and graphics. It is open-source and widely used by scientists, not just bioinformaticians. Base packages of R are built into your initial installation, but Read More...
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Bioinformatics
01/24/2023 - Welcome to BTEP’s Introduction to Unix on Biowulf course series. We will meet on Tuesdays and Thursdays from 1 pm to 2 pm (starting January 24, 2023) to learn how to work in the Unix command line Read More...
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Bioinformatics
11/16/2022 - Join Drs. Jennifer E. Beane-Ebel and Vijaya B. Kolachalama of Boston University as they discuss their studies of pathological and molecular alterations associated with lesion severity and progression. Topics include deep learning methods for Read More...
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Bioinformatics
11/15/2022 - This workshop, geared toward researchers and information professionals, will provide an overview of appraising and preparing research data for the purpose of data sharing through the Data Curation Network’s CURATE(D) model. During Read More...
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Bioinformatics
10/03/2022 - Join Drs. Andrey Fedorov and Hugo Aerts for the upcoming October NCI Imaging and Informatics Community Webinar. Their presentation includes updates to the Imaging Data Commons (IDC)—a repository of the NCI Cancer Research Read More...
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Bioinformatics
08/12/2022 - The NIH-funded International epidemiology Databases to Evaluate AIDS (IeDEA) consortium is a global HIV observational research network with seven geographic regions and over 350 participating HIV care and treatment clinics. The data scientists and data Read More...
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Bioinformatics
08/10/2022 - For our next CDSL webinar we will have two fellows’ talks from Dr. Zisha Zhong and Arati Rajeevan . Zisha’s talk details: Title: Multi-task Feature Learning to train Interpretable Encoders on Histopathology Images Digital Read More...
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Bioinformatics
07/08/2022 - In this presentation, Drs. Hutson and Liu will provide a high-level overview of the data, software and model sharing capabilities and strategies developed as part of the Cancer Moonshot Immuno-Oncology Translational Network (IOTN) Data Read More...
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Bioinformatics
04/06/2022 - Life Rafts in a Sea of Data: The Role of Librarians in Supporting Data Sharing Abstract: The NIH has updated its policies on managing and sharing research data and will require a Data Management Read More...
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Bioinformatics
02/11/2022 - Dr. Jeremy Goecks will share how cancer researchers are using the machine learning capabilities of the Galaxy project, one of the largest and most widely used open-source platforms for biomedical data science , to predict Read More...
Rockville, MD
Collaborative
We are a bioinformatics team within the Center for Biomedical Informatics and Information Technology’s (CBIIT’s) Cancer Informatics Branch (CIB)—soon to be referred to as the Informatics and Data Science (IDS) Program. Headed Read More...
Bethesda, MD
Trans NIH Facility
The NIH Biowulf Cluster provides researchers with a world-class system to assist in solving complex biomedical problems as diverse as gene variation in worldwide human populations, deep learning to model protein structures, and PET brain Read More...
Web Page
CREx News & Updates October 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGLIGHTS Learn more about services from the CPTR Read More...
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CREx News & Updates November 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight FACILITY HIGLIGHTS Learn more about services from the NINDS Quantitative Magnetic Resonance Imaging Core. NINDS Read More...
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The OSTR offers cutting-edge technology platforms to the CCR scientific community through centralized facilities. The videos accessed through this page are designed to introduce the various scientific methodologies OSTR makes available through the cores on Read More...
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Confocal
2024 L. Balagopalan, T. Moreno, H. Qin, B. C. Angeles, T. Kondo, J. Yi, K. M. McIntire, N. Alvinez, S. Pallikkuth, M. E. Lee, H. Yamane, A. D. Tran, P. Youkharibache, R. E. Cachau, N. Taylor, Read More...
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Confocal
PLEASE, JOIN US AT LMIG ZOOM SEMINAR! DATE: Tuesday, January 14th, 2025 TIME AND LOCATION: 11 am EST, ZOOM (INVITATION BY LMIG LIST SERVER)Dr. Yun-Xing Wang (NIH/NCI) “Determining 3D structures of individual molecules in Read More...
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Confocal
PLEASE, JOIN US AT LMIG ZOOM SEMINAR! DATE: Tuesday, January 14th, 2025 TIME AND LOCATION: 11 am EST, ZOOM (INVITATION BY LMIG LIST SERVER) Dr. Yun-Xing Wang (NIH/NCI) “Determining 3D structures of individual Read More...
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Bioinformatics
Most BTEP courses include detailed course materials including lesson content, additional resources, and lesson associated data. These course materials are listed here so that learners can easily return to and review concepts taught in class Read More...
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Bioinformatics
The computational chemistry and protein modeling team in the Advanced Biomedical Computational Science (ABCS) group provides novel solutions in structural modeling and computational chemistry. Computational scientists in the group collaborate with NCI researchers by using Read More...
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Bioinformatics
Recently, the NIH HPC Team has provided on demand access to HPC resources via web browser through integration of Open OnDemand , an open source project supporting "nearly 400 HPC centers around the world" . This Read More...
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Bioinformatics
Listed below are the video recordings of past BTEP events (classes, seminars, workshops). Videos are hosted on various servers and may play slightly differently. Some videos may be downloaded for local viewing. Recorded Videos of Read More...
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Bioinformatics
Register now for an upcoming seminar on January 22, 2025 , “Revealing Tumor-Promoting Signals in Breast Cancer Subtypes: A NIDAP Analysis of Single-Cell Data” . This one-hour talk will feature guest speaker and NIDAP developer, Josh Meyer, who will Read More...
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Bioinformatics
Congratulations, your experiments have been completed and you have a large amount of data. Now, it’s time to analyze these data. But where do you begin? How can you gain the most meaning from Read More...
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Bioinformatics
This lesson provides an introduction to R in the context of single cell RNA-Seq analysis with Seurat. Learning Objectives Learn about options for analyzing your scRNA-Seq data. Learn about resources for learning R programming. Learn Read More...
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Bioinformatics
Learning Objectives To understand: 1. the difference between R and RStudioIDE. 2. how to work within the RStudio environment including: creating an Rproject and Rscript navigating between directories using functions obtaining help how R can enhance data Read More...
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Bioinformatics
Help Session Lesson 3 Loading data Import data from the sheet "iris_data_long" from the excel workbook (file_path = "./data/iris_data.xlsx"). Make sure the column names are unique and Read More...
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Bioinformatics
Data import and reshape Objectives 1. Learn to import multiple data types 2. Data reshape with tidyr : pivot_longer() , pivot_wider() , separate() , and unite() Installing and loading packages So far we have only worked with objects that Read More...
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Bioinformatics
NIDAP , the N IH I ntegrated D ata A nalysis P latform, is an innovative, cloud-based, and collaborative data aggregation and analysis platform. The platform Read More...
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Bioinformatics
Resources Tertiary Analysis - Biological Meaning Pathway Analysis IPA (Qiagen - CCR License) Future talk Functional Analysis Gene Set Enrichment Analysis (GSEA) https://www.gsea-msigdb.org/gsea/index.jsp DAVID https://david.ncifcrf.gov/ Enrichr Read More...
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Bioinformatics
Gene ontology and pathway analysis Objectives Determine potential next steps following differential expression analysis. Tour geneontology.org and understand the three main ontologies. Learn about different methods and tools related to functional enrichment and pathway Read More...
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Bioinformatics
Database for Annotation, Visualization and Integrated Discovery (DAVID) - an overview Before getting started, remember to be signed on to the DNAnexus GOLD environment. Lesson 17 review In the previous class, we got an overview of Read More...
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Bioinformatics
Lesson 2: Getting Started with R on Biowulf Learning objectives Understand how R can be deployed on Biowulf Understand how to access and use R modules Learn to create a custom R library on Biowulf Deploying Read More...
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Bioinformatics
Lesson 1: Introduction to Biowulf, Unix, and R Learning Objectives Learn about why you may want to use R on Biowulf. Refresh Unix and R skills. This lesson will not be hands on. Why use R Read More...
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Bioinformatics
Learning Objectives Understand the components of an HPC system. How does this compare to your local desktop? Learn about Biowulf, the NIH HPC cluster. Learn about the command line interface and resources for learning. What Read More...
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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...
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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...
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Bioinformatics
Visualizing clusters with heatmaps Objectives Introduce the heatmap and dendrogram as tools for visualizing clusters in data. Learn to construct cluster heatmap using the package pheatmap . Learn how to save a non-ggplot2 plot. Introduce ggplotify Read More...
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Bioinformatics
Visualizing clusters with heatmaps Objectives Introduce the heatmap and dendrogram as tools for visualizing clusters in data. Learn to construct cluster heatmap using the package pheatmap . Learn how to save a non-ggplot2 plot. Introduce ggplotify Read More...
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Bioinformatics
Visualizing clusters with heatmaps Objectives Introduce the heatmap and dendrogram as tools for visualizing clusters in data. Learn how to work with the package pheatmap . Learn how to save a non-ggplot2 plot. Introduce ggplotify to Read More...
Web Page
Bioinformatics
Introduction to R and RStudio IDE Objectives To understand: 1. the difference between R and RStudioIDE. 2. how to work within the RStudio environment including: creating an Rproject and Rscript navigating between directories using functions obtaining help 3. Read More...