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X-WR-CALNAME:Office of Advanced Research Computing
X-ORIGINAL-URL:https://oarc.rutgers.edu
X-WR-CALDESC:Events for Office of Advanced Research Computing
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BEGIN:VTIMEZONE
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BEGIN:DAYLIGHT
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TZNAME:EDT
DTSTART:20210314T070000
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DTSTART:20211107T060000
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BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210707T140000
DTEND;TZID=America/New_York:20210707T170000
DTSTAMP:20260424T075714
CREATED:20210609T133755Z
LAST-MODIFIED:20210609T141635Z
UID:5033-1625666400-1625677200@oarc.rutgers.edu
SUMMARY:Intro to Linux Command Line
DESCRIPTION:Register to attend this workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. Alternatively\, Windows 10 users can install the complete Windows Subsystem for Linux. \nWorkshop content: This 3-hour workshop offers a brief introduction to using the Linux operating system\, focusing on command-line operations. The primary objective is to provide beginner-level familiarity with using a Linux system for common research computing tasks. Linux systems (e.g.\, workstations\, remote servers\, computing clusters) can be thought of as the foundation of research computing. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please email Bala Desinghu. \nRegister to attend the workshop:\n \n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-linux-command-line-7-7-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210720T080000
DTEND;TZID=America/New_York:20210721T190000
DTSTAMP:20260424T075714
CREATED:20210416T183507Z
LAST-MODIFIED:20210416T183514Z
UID:4648-1626768000-1626894000@oarc.rutgers.edu
SUMMARY:Amarel monthly maintenance
DESCRIPTION:Anticipated monthly maintenance schedule March 2021 - January 2022: \nMAR 19-20-21 (3/20 & 3/21 Hill Data Center maintenance\, which will affect Amarel users)\nAPR 20-21\nMAY 18-19\nJUN 15-16\nJUL 20-21\nAUG 17-18\nSEP 21-22\nOCT 19-20\nNOV 16-17\nDEC 21-22\nJAN 18-19 \n			\n				Visit Amarel system status for more information
URL:https://oarc.rutgers.edu/event/amarel-monthly-maintenance-7-20-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210723T140000
DTEND;TZID=America/New_York:20210723T170000
DTSTAMP:20260424T075714
CREATED:20210609T142913Z
LAST-MODIFIED:20210609T165015Z
UID:5042-1627048800-1627059600@oarc.rutgers.edu
SUMMARY:Intro to the Amarel Cluster
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. You must have an Amarel account set up before the workshop.  \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. Alternatively\, Windows 10 users can install the complete Windows Subsystem for Linux. \nWorkshop content: This fast-paced 3-hour short course offers a brief introduction to using a Linux cluster. The goal is to help everyone make those first few steps toward productively using a Linux cluster for research — all members of the Rutgers community have free access to the Amarel Cluster. The workshop covers the basics of HPC Cluster\, Web access to the cluster\, SLURM\, File System and Storage\, and Setting up environment for the Software Stacks. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please email Bala Desinghu. \nRegister to attend the workshop:\n\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-the-amarel-cluster-7-23-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210806T140000
DTEND;TZID=America/New_York:20210806T170000
DTSTAMP:20260424T075714
CREATED:20210609T152839Z
LAST-MODIFIED:20210609T165104Z
UID:5048-1628258400-1628269200@oarc.rutgers.edu
SUMMARY:Intro to Python
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: This three hour workshop focuses on learning the basics of python programming including data types\, conditionals\, functions\, and python in HPC environment. \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.\n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-python-8-6-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210817T080000
DTEND;TZID=America/New_York:20210818T190000
DTSTAMP:20260424T075714
CREATED:20210330T162043Z
LAST-MODIFIED:20210330T162049Z
UID:4651-1629187200-1629313200@oarc.rutgers.edu
SUMMARY:Amarel monthly maintenance
DESCRIPTION:Anticipated monthly maintenance schedule March 2021 - January 2022: \nMAR 19-20-21 (3/20 & 3/21 Hill Data Center maintenance\, which will affect Amarel users)\nAPR 20-21\nMAY 18-19\nJUN 15-16\nJUL 20-21\nAUG 17-18\nSEP 21-22\nOCT 19-20\nNOV 16-17\nDEC 21-22\nJAN 18-19 \n			\n				Visit Amarel system status for more information
URL:https://oarc.rutgers.edu/event/amarel-monthly-maintenance-8-17-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210820T140000
DTEND;TZID=America/New_York:20210820T170000
DTSTAMP:20260424T075714
CREATED:20210609T155112Z
LAST-MODIFIED:20210609T165137Z
UID:5053-1629468000-1629478800@oarc.rutgers.edu
SUMMARY:Python for Big Data
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: This three hour workshop focuses on learning the python tools and techniques to work with big data that demand CPU and memory.  It covers the basics of Numpy\, Pandas\, Numba\, and Dask. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.Register to attend the workshop:\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/python-for-big-data-8-20-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210903T140000
DTEND;TZID=America/New_York:20210903T170000
DTSTAMP:20260424T075714
CREATED:20210609T160004Z
LAST-MODIFIED:20210609T165217Z
UID:5057-1630677600-1630688400@oarc.rutgers.edu
SUMMARY:Machine Learning with Python and Scikit-Learn
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: In this three hour workshop\, we will go through the basics of unsupervised and supervised methods\, discuss some of the popular models such as Support Vector Machines\, Decision Trees\, and Random Forest\, and show how these models work for classification and regression problems. \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.\n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-machine-learning-with-python-and-scikit-learn-9-3-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210917T140000
DTEND;TZID=America/New_York:20210917T170000
DTSTAMP:20260424T075714
CREATED:20210609T161701Z
LAST-MODIFIED:20210609T165243Z
UID:5063-1631887200-1631898000@oarc.rutgers.edu
SUMMARY:Deep Learning with Python and Keras
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: This three hour workshop focuses on learning the basics of Deep Learning with Python and Keras including data preparation\, artificial neural networks (ANN)\, Convolutional Neural Networks (CNN)\, and Recurrent Neural Networks (RNN).  \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.Register to attend the workshop:\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-deep-learning-with-python-and-keras-9-17-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210921T080000
DTEND;TZID=America/New_York:20210922T190000
DTSTAMP:20260424T075714
CREATED:20210330T162337Z
LAST-MODIFIED:20210330T162344Z
UID:4658-1632211200-1632337200@oarc.rutgers.edu
SUMMARY:Amarel monthly maintenance
DESCRIPTION:Anticipated monthly maintenance schedule March 2021 - January 2022: \nMAR 19-20-21 (3/20 & 3/21 Hill Data Center maintenance\, which will affect Amarel users)\nAPR 20-21\nMAY 18-19\nJUN 15-16\nJUL 20-21\nAUG 17-18\nSEP 21-22\nOCT 19-20\nNOV 16-17\nDEC 21-22\nJAN 18-19 \n			\n				Visit Amarel system status for more information
URL:https://oarc.rutgers.edu/event/amarel-monthly-maintenance-9-21-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210928T130000
DTEND;TZID=America/New_York:20210928T160000
DTSTAMP:20260424T075714
CREATED:20210813T203720Z
LAST-MODIFIED:20210921T150237Z
UID:5451-1632834000-1632844800@oarc.rutgers.edu
SUMMARY:Machine Learning Series by OARC—Random Forest Workshop
DESCRIPTION:Please register to attend this workshop at the bottom of this page. After filling out the registration form\, we will email you the Zoom link. \nAmarel account: You need an Amarel account to participate in the lab section Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nIf you have questions or need help\, please contact Janet Chang. \nTopics:\n1. Introduction to Machine Learning (ML) \n\nBig data and Machine Learning\nRelate Machine Learning to other disciplines\nMachine Learning algorithms\nClassification and Regression\n\n2. Understanding Random Forest (RF) \n\nApplications of Random Forests\nWhy Random Forests\nThe Random Forest Algorithm\nFundamental concepts – ML\, RF\n\n3. Implementing Random Forest \n\nFeature Importance and Feature Selection\nDealing with missing data\, and imbalanced data\nBest split of the node–node impurity\n\n\nOver-fitting and underfitting\nThe model performance\nThe model interpretability\n\n4. Lab Exercise \nWe will use cancer health data combined with gene expression data to build random forest models\, predicting output variables. Both classifier and regressor will be addressed. \nLab 1\, Set up\, and launch R \nLab 2\, Data preparation \n\n2a. pre-processing\,\n2b. data partition\,\n2c. missing data imputation\,\n2d. feature selection\n\nLab 3\, Building the RF model: \n\n3b. handling imbalanced data\n3c. building the RF model\n3d. turning the parameters\n\nLab 4\, Validation and model performance \n\n4a. prediction and Confusion Matrix — test data\n4b. ROC curve and AUC\n4c. k-fold cross-validation\n4d. parallel computing\n\nLab 5\, Visualization and the model interpretation \n\n5a. plotting the random forest tree\n5b. plotting feature importance\n5c. partial dependence plot (PDP)\n5d. MDS – multi-dimensional scaling plot of proximity matrix\n\n \nTo Register: \n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/machine-learning-series-by-oarc-random-forest-workshop-9-28-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20210929T130000
DTEND;TZID=America/New_York:20210929T150000
DTSTAMP:20260424T075714
CREATED:20210908T182528Z
LAST-MODIFIED:20210913T171118Z
UID:5611-1632920400-1632927600@oarc.rutgers.edu
SUMMARY:Clinical informatics – introduction
DESCRIPTION:Workshop 1: Clinical informatics\, data science in biomedicine and Advanced computing seriesBranimir Ljubic presents the first workshop: “Clinical informatics – introduction” within the series of workshops: “Clinical informatics\, Data science in medicine\, Advanced computing.” These workshops will provide theoretical insights and practical advice needed for understanding and successful work in the field of Clinical informatics and Data science in medicine. The first workshop will cover the introduction to Clinical informatics\, significance\, modern applications\, etc. \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Branimir Ljubic.Register to attend the workshop:\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/clinical-informatics-9-29-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211001T140000
DTEND;TZID=America/New_York:20211001T170000
DTSTAMP:20260424T075714
CREATED:20210813T001932Z
LAST-MODIFIED:20210813T001939Z
UID:5399-1633096800-1633107600@oarc.rutgers.edu
SUMMARY:Intro to Linux Command Line
DESCRIPTION:Register to attend this workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. Alternatively\, Windows 10 users can install the complete Windows Subsystem for Linux. \nWorkshop content: This 3-hour workshop offers a brief introduction to using the Linux operating system\, focusing on command-line operations. The primary objective is to provide beginner-level familiarity with using a Linux system for common research computing tasks. Linux systems (e.g.\, workstations\, remote servers\, computing clusters) can be thought of as the foundation of research computing. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please email Bala Desinghu. \nRegister to attend the workshop:\n \n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-linux-command-line-10-1-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211006T130000
DTEND;TZID=America/New_York:20211006T150000
DTSTAMP:20260424T075714
CREATED:20210910T171908Z
LAST-MODIFIED:20210913T171314Z
UID:5633-1633525200-1633532400@oarc.rutgers.edu
SUMMARY:Clinical informatics\, data science in biomedicine and Advanced computing series – workshop 2
DESCRIPTION:Workshop 2: Computer science in clinical medicine\, introduction into Machine learning\, Advanced machine learning methods in medicine — review\nBranimir Ljubic presents the second workshop within the series of workshops: “Clinical informatics\, Data science in medicine\, Advanced computing.” The workshop will cover Prediction of medical conditions using Advanced Machine Learning (ML) Techniques — review of the newest methods and trends. Importance of the entire process of creating ML algorithms applicable in clinical medicine.  \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Branimir Ljubic.\n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/clinical-informatics-workshop2-10-6-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211008T130000
DTEND;TZID=America/New_York:20211008T160000
DTSTAMP:20260424T075714
CREATED:20210813T200133Z
LAST-MODIFIED:20211108T204913Z
UID:5439-1633698000-1633708800@oarc.rutgers.edu
SUMMARY:HPC in life science—Genomics Series2\, Variant analysis on Amarel cluster
DESCRIPTION:Please register to attend this workshop at the bottom of this page. After filling out the registration form\, we will email you the Zoom link. \nAmarel account: You need an Amarel account to participate in the lab section Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nIf you have questions or need help\, please contact Janet Chang. \n1. Introduction – The Basics of Variant Analysis \n\nConcepts of genetic variant\nThe journey of variant study\nSignificance\nChallenges\n\n2. Variant Analysis –Overview \n\nWorkflow and informatics tools\nVariant detection methods\nVariant calling algorithms\nVariant annotation and functional prediction\nVariant prioritization\, filtering\, and validation\n\n3. Variant Analysis – Getting ready \n\nFile format—fastq\, vcf\, bed\, bam/sam\nVariant ID and databases\nVariant Reporting\nVariant visualization\n** Variant analysis of COVID-19 genomes\n\n4. Variant calling pipeline example — GATK \n\nGATK Best practices\nPre-processing\n\nBWA\, picard and GATK-format\, Dealing with duplicates\,\nBase recalibration (BQSR)\n\n\nVariant discovery\n\nHaplotypeCaller\, Germline and somatic mutation calling\,\nVariant recalibration (VQSR)\, Variant Filtering\n\n\nPreliminary analysis\n\nVariant annotation/function prediction\nVariant evaluation\n\n\n\n5. Variant calling pipeline example — Varscan2\, Samtools \n\nSNP/INDEL calling using Varscan2\nSNP/INDEL calling using samtools/bcftools\nFiltering and function prediction\n\n6. Labs \n\nLab1 — Pre-processing\, QC\, mapping\, and reference preparation\nLab2 — GATK pipeline\nLab3 — Samtools and varscan2 pipelines\nLab4 — Variant annotation/ Functional prediction\nLab5 — Visualization\nLab6 — Manage your jobs using slurm job scheduler\n\n \n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/hpc-life-science-genomics-series2-10-8-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211014T120000
DTEND;TZID=America/New_York:20211014T150000
DTSTAMP:20260424T075714
CREATED:20210928T201809Z
LAST-MODIFIED:20210928T202934Z
UID:5778-1634212800-1634223600@oarc.rutgers.edu
SUMMARY:Computer science in medicine\, introduction into Machine learning\, traditional learning models  – workshop 3
DESCRIPTION:Workshop 3: Computer science in medicine\, introduction into Machine learning\, traditional learning models (Decision trees\, K-NN\, Perceptron\, SVM\, Bagging – Boosting (random forest\, Adaboost)\, etc.)\nBranimir Ljubic presents the third workshop: “Computer science in medicine\, introduction into Machine learning\, traditional learning models (Decision trees\, K-NN\, Perceptron\, SVM\, Bagging – Boosting (random forest\, Adaboost)\, etc.)” within the series of workshops: “Clinical informatics\, Data science in medicine\, Advanced computing.” The third workshop will cover traditional Machine Learning methods. \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Branimir Ljubic.\n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/clinical-informatics-workshop3-10-14-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211015T140000
DTEND;TZID=America/New_York:20211015T170000
DTSTAMP:20260424T075714
CREATED:20210813T005354Z
LAST-MODIFIED:20210813T005429Z
UID:5404-1634306400-1634317200@oarc.rutgers.edu
SUMMARY:Intro to the Amarel Cluster
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. You must have an Amarel account set up before the workshop.  \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. Alternatively\, Windows 10 users can install the complete Windows Subsystem for Linux. \nWorkshop content: This fast-paced 3-hour short course offers a brief introduction to using a Linux cluster. The goal is to help everyone make those first few steps toward productively using a Linux cluster for research — all members of the Rutgers community have free access to the Amarel Cluster. The workshop covers the basics of HPC Cluster\, Web access to the cluster\, SLURM\, File System and Storage\, and Setting up environment for the Software Stacks. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please email Bala Desinghu. \nRegister to attend the workshop:\n\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-the-amarel-cluster-10-15-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211021T123000
DTEND;TZID=America/New_York:20211021T153000
DTSTAMP:20260424T075714
CREATED:20211012T205356Z
LAST-MODIFIED:20211012T205402Z
UID:5855-1634819400-1634830200@oarc.rutgers.edu
SUMMARY:Machine learning\, Deep learning models (CNN\, RNN\, GAN) – workshop 4
DESCRIPTION:Branimir Ljubic presents the fourth workshop: “Machine learning\, Deep learning models (CNN\, RNN\, GAN)” within the series of workshops: “Clinical informatics\, Data science in medicine\, Advanced computing.” This workshop will cover Deep learning Machine learning methods. \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Branimir Ljubic.Register to attend the workshop:\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/machine-learning-deep-learning-models-cnn-rnn-gan-workshop-4/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211029T140000
DTEND;TZID=America/New_York:20211029T170000
DTSTAMP:20260424T075714
CREATED:20210813T025400Z
LAST-MODIFIED:20210813T025406Z
UID:5409-1635516000-1635526800@oarc.rutgers.edu
SUMMARY:Intro to Python
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: This three hour workshop focuses on learning the basics of python programming including data types\, conditionals\, functions\, and python in HPC environment. \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.\n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/intro-to-python-10-29-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211105T140000
DTEND;TZID=America/New_York:20211105T170000
DTSTAMP:20260424T075714
CREATED:20210813T034730Z
LAST-MODIFIED:20210813T034807Z
UID:5418-1636120800-1636131600@oarc.rutgers.edu
SUMMARY:Python for Big Data
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: This three hour workshop focuses on learning the python tools and techniques to work with big data that demand CPU and memory.  It covers the basics of Numpy\, Pandas\, Numba\, and Dask. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.Register to attend the workshop:\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/python-for-big-data-11-5-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211116T080000
DTEND;TZID=America/New_York:20211117T190000
DTSTAMP:20260424T075715
CREATED:20210330T162835Z
LAST-MODIFIED:20210330T162842Z
UID:4665-1637049600-1637175600@oarc.rutgers.edu
SUMMARY:Amarel monthly maintenance
DESCRIPTION:Anticipated monthly maintenance schedule March 2021 - January 2022: \nMAR 19-20-21 (3/20 & 3/21 Hill Data Center maintenance\, which will affect Amarel users)\nAPR 20-21\nMAY 18-19\nJUN 15-16\nJUL 20-21\nAUG 17-18\nSEP 21-22\nOCT 19-20\nNOV 16-17\nDEC 21-22\nJAN 18-19 \n			\n				Visit Amarel system status for more information
URL:https://oarc.rutgers.edu/event/amarel-monthly-maintenance-11-16-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211119T140000
DTEND;TZID=America/New_York:20211119T170000
DTSTAMP:20260424T075715
CREATED:20210813T035905Z
LAST-MODIFIED:20210813T035943Z
UID:5414-1637330400-1637341200@oarc.rutgers.edu
SUMMARY:Machine Learning with Python and Scikit-Learn
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: In this three hour workshop\, we will go through the basics of unsupervised and supervised methods\, discuss some of the popular models such as Support Vector Machines\, Decision Trees\, and Random Forest\, and show how these models work for classification and regression problems. \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.\n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/machine-learning-with-python-and-scikit-learn-11-19-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211202T130000
DTEND;TZID=America/New_York:20211202T160000
DTSTAMP:20260424T075715
CREATED:20211129T202732Z
LAST-MODIFIED:20211129T203815Z
UID:6133-1638450000-1638460800@oarc.rutgers.edu
SUMMARY:Workshop 5. Social Networks (graphs) - theory and examples of medical applications
DESCRIPTION:Branimir Ljubic presents the workshop/seminar: “Social Networks (graphs) – theory and examples of medical applications” within the series of workshops/seminars: “Clinical informatics\, Data science in medicine\, Advanced computing.” This workshop/seminar will cover Social Networks (graphs). \n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/social-networks-workshop-5/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211209T130000
DTEND;TZID=America/New_York:20211209T170000
DTSTAMP:20260424T075715
CREATED:20211026T200606Z
LAST-MODIFIED:20211130T190741Z
UID:5927-1639054800-1639069200@oarc.rutgers.edu
SUMMARY:Enabling protein structure prediction with artificial intelligence at Rutgers and beyond
DESCRIPTION:Learning objectives\nThis Institute for Quantitative Biomedicine Crash Course will present a broad overview of how Artificial Intelligence/Machine Learning (AI/ML) methods are being used for de novo protein structure prediction and provide hands-on experience with both AlphaFold2 and RoseTTAFold. \nCASP14 revealed that AlphaFold2\, developed by Google DeepMind\, Inc.\, can predict three dimensional structures of small globular proteins with accuracies comparable to experimental methods. RoseTTAFold\, developed at the University of Washington/Howard Hughes Medical Institute\, approaches AlphaFold2 in terms of prediction accuracy while requiring fewer computational resources. \nIn this Crash Course\, expert speakers will provide a solid foundation on the role of AI/ML in structural biology and showcase ongoing research efforts at Rutgers. During the hands-on tutorial\, participants will learn how to utilize these new computational tools to compute structure models from amino acid sequences and download precomputed structure models from the AlphaFoldDB database. Local computing resources (Rutgers University Amarel Cluster) and access to Google Colab and the RoseTTAFold server will be made available during the hands-on session. \nCo-organizers: Balamurugan Desinghu\, Ph.D. and Stephen K. Burley\, M.D.\, D.Phil \nView schedule [PDF] \nRegister for event
URL:https://oarc.rutgers.edu/event/enabling-protein-structure-prediction-with-artificial-intelligence-at-rutgers-and-beyond/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211210T140000
DTEND;TZID=America/New_York:20211210T170000
DTSTAMP:20260424T075715
CREATED:20210813T041055Z
LAST-MODIFIED:20210813T191106Z
UID:5428-1639144800-1639155600@oarc.rutgers.edu
SUMMARY:Deep Learning with Python and Keras
DESCRIPTION:Register to attend the workshop at the bottom of this page. Zoom link will be emailed after filling out the registration form. \nAmarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN  to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. \nWorkshop content: This three hour workshop focuses on learning the basics of Deep Learning with Python and Keras including data preparation\, artificial neural networks (ANN)\, Convolutional Neural Networks (CNN)\, and Recurrent Neural Networks (RNN). \n**NOTE** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please contact Bala Desinghu.\n\nRegister to attend the workshop:\n\n	Notice: JavaScript is required for this content.
URL:https://oarc.rutgers.edu/event/deep-learning-with-python-and-keras-12-10-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20211221T080000
DTEND;TZID=America/New_York:20211222T190000
DTSTAMP:20260424T075715
CREATED:20210330T163611Z
LAST-MODIFIED:20210330T163617Z
UID:4668-1640073600-1640199600@oarc.rutgers.edu
SUMMARY:Amarel monthly maintenance
DESCRIPTION:Anticipated monthly maintenance schedule March 2021 - January 2022: \nMAR 19-20-21 (3/20 & 3/21 Hill Data Center maintenance\, which will affect Amarel users)\nAPR 20-21\nMAY 18-19\nJUN 15-16\nJUL 20-21\nAUG 17-18\nSEP 21-22\nOCT 19-20\nNOV 16-17\nDEC 21-22\nJAN 18-19 \n			\n				Visit Amarel system status for more information
URL:https://oarc.rutgers.edu/event/amarel-monthly-maintenance-12-21-21/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20220107T140000
DTEND;TZID=America/New_York:20220107T170000
DTSTAMP:20260424T075715
CREATED:20211130T153520Z
LAST-MODIFIED:20221128T152923Z
UID:6142-1641564000-1641574800@oarc.rutgers.edu
SUMMARY:Intro to Linux Command Line
DESCRIPTION:Amarel account: Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. Alternatively\, Windows 10 users can install the complete Windows Subsystem for Linux. \nWorkshop content: This 3-hour workshop offers a brief introduction to using the Linux operating system\, focusing on command-line operations. The primary objective is to provide beginner-level familiarity with using a Linux system for common research computing tasks. Linux systems (e.g.\, workstations\, remote servers\, computing clusters) can be thought of as the foundation of research computing. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please email Bala Desinghu.
URL:https://oarc.rutgers.edu/event/intro-to-linux-command-line-1-7-22/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20220111T080000
DTEND;TZID=America/New_York:20220112T190000
DTSTAMP:20260424T075715
CREATED:20210416T184318Z
LAST-MODIFIED:20220105T215347Z
UID:4736-1641888000-1642014000@oarc.rutgers.edu
SUMMARY:Amarel monthly maintenance
DESCRIPTION:Each maintenance period is expected to begin at about 08:00 ET on the first day and end by about 19:00 ET on the 2nd day. \n2022 anticipated maintenance schedule (all dates subject to change):\nJAN 11 & 12 \nFEB 15 & 16\nMAR 15 & 16\nAPR 19 & 20\nMAY 17 & 18\nJUN 21 & 22\nJUL 19 & 20\nAUG 16 & 17\nSEP 20 & 21\nOCT 18 & 19\nNOV 15 & 16\nDEC 20 & 21 \nMaintenance is usually scheduled for weekdays because it often involves coordination with University facilities teams or external vendors. There may also be times when Amarel must be unavailable due to externally-scheduled data center facilities\, power\, or telecommunications maintenance. When this happens\, we will do our best to avoid adding to a month’s downtime with our own maintenance work (e.g.\, by working in parallel or postponing some tasks). \n			\n				Visit Amarel system status for more information
URL:https://oarc.rutgers.edu/event/amarel-monthly-maintenance-1-11-22/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20220114T140000
DTEND;TZID=America/New_York:20220114T170000
DTSTAMP:20260424T075715
CREATED:20211130T155415Z
LAST-MODIFIED:20221128T153020Z
UID:6145-1642168800-1642179600@oarc.rutgers.edu
SUMMARY:Intro to the Amarel Cluster
DESCRIPTION:Amarel account: Apply here as soon as possible. You must have an Amarel account set up before the workshop.  \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nSSH setup: Windows users must install an SSH client like PuTTY or MobaXterm. Alternatively\, Windows 10 users can install the complete Windows Subsystem for Linux. \nWorkshop content: This fast-paced 3-hour short course offers a brief introduction to using a Linux cluster. The goal is to help everyone make those first few steps toward productively using a Linux cluster for research — all members of the Rutgers community have free access to the Amarel Cluster. The workshop covers the basics of HPC Cluster\, Web access to the cluster\, SLURM\, File System and Storage\, and Setting up environment for the Software Stacks. \n**Note** Just observing is welcome\, but to participate in hands-on activities\, you must have an Amarel account setup before the workshop. Please complete our web-based form at least 24 hours before the workshop (do this as soon as possible). \nIf you have questions or need help\, please email Bala Desinghu.
URL:https://oarc.rutgers.edu/event/intro-to-the-amarel-cluster-1-14-22/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20220121T130000
DTEND;TZID=America/New_York:20220121T163000
DTSTAMP:20260424T075715
CREATED:20211108T212521Z
LAST-MODIFIED:20221128T153404Z
UID:6030-1642770000-1642782600@oarc.rutgers.edu
SUMMARY:RNA-Seq workshop Part 1
DESCRIPTION:Computational Genomics Series by OARC \nAmarel account: You need an Amarel account to participate in the lab section Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nTo connect to the cluster: Please test and be sure it is working for you. Check the user-guide of how to get on to the cluster. \nIf you have questions or need help\, please contact Janet Chang. \n\nIntroduction to RNA-Seq\n\nIssues to consider\nExperimental design\n(read length\, depth\, replicates..)\nStatistics for RNASeq – power analysis\n\n\nQC and Raw read QC\n\nDaily utilities\nFastq QC and Interpretation\nQuality trim-Trimmomatics\n\n\nRead mapping and Read counts\n\nAligners—tophat\, bowtie\, bwa\, Star\, HISAT2\,\nSalmon\nHtSeq-count/STAR quantMode geneCounts…\nPost mapping QC\n\n\n\nLab Exercise: FastQC; seqtk; Trimmomatic; HISAT2;
URL:https://oarc.rutgers.edu/event/rna-seq-workshop-part-1/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=America/New_York:20220124T130000
DTEND;TZID=America/New_York:20220124T163000
DTSTAMP:20260424T075715
CREATED:20211108T221526Z
LAST-MODIFIED:20221128T153516Z
UID:6046-1643029200-1643041800@oarc.rutgers.edu
SUMMARY:RNA-Seq workshop part 2
DESCRIPTION:Computational Genomics Series by OARC \nAmarel account: You need an Amarel account to participate in the lab section Apply here as soon as possible. \nVPN setup: You have to be connected on Rutgers’ network or be on VPN to access Amarel resources. \nTo connect to the cluster: Please test and be sure it is working for you. Check the user-guide of how to get on to the cluster. \nIf you have questions or need help\, please contact Janet Chang. \n\nData processing and filtering\n\nIntroduction to R and Bioconductor\nData processing–filtering\nNormalization\n\n\nQuantification and Differential expression\n\nExpression Quantification\nStatistical Models\nMultiple test correction\n\n\nAnalysis QC (Sample QC)\n\nClustering\nPCA\nHeatmap\nVolcano plot\n\n\n\nLab Exercise: data preparation; DE analysis with edgeR;\nPCA\, Clustering\, heatmap\, Volcano plot…
URL:https://oarc.rutgers.edu/event/rna-seq-workshop-part-2/
END:VEVENT
END:VCALENDAR