Research Tools and Services Discovery
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| RETIRED - TensorFlow Cloud Image Indiana University (Indiana U) TensorFlow and Jupyter notebookRelated Jetstream resources:
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| RETIRED - Jupyter Notebook Cloud Image Indiana University (Indiana U) Jupyter Notebook is an open-source web application that allows you to create and share documents that contain live code, equations, visualizations and narrative text. Uses include: data cleaning and transformation, numerical simulation, statistical modeling, data visualization, machine learning, and much more.Related Jetstream resources:
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| Genomics Toolkit Cloud Image Indiana University (Indiana U) Genome Analysis Tools Look here of complete list of tools -> https://iujetstream.atlassian.net/wiki/spaces/JWT/pages/334397443/Genomics+Toolkit+imageRelated Jetstream resources:
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| RETIRED - WQ-MAKER with Genemark and BLAT Cloud Image Indiana University (Indiana U) BLAT and Genemark installed in WQ-MAKER image This image was created by the team at CyVerse and is likely the best MAKER image on Jetstream to use and customize from. This version of MAKER should be multi-node, work queue based, so you should be able to use smaller flavor sizes but more of them. Please refer to the docs linked below. Docs: https://cyverse-wq-maker-tutorial.readthedocs-hosted.com/en/latest/index.htmlRelated Jetstream resources:
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| RETIRED - SageMath and JupyterLab Cloud Image Indiana University (Indiana U) Image includes SageMath a free open-source mathematics software system licensed under the GPL; JupyterLab JupyterLab the next-generation web-based user interface for Project Jupyter; R and RstudioRelated Jetstream resources:
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| Intel Development (CentOS 7) Cloud Image Indiana University (Indiana U) Intel compilers and development environment *REQUIRES a m1.small or larger VM to launch* Based on Centos 7 (7.8), Intel(R) Parallel Studio + GUI + iRODs access added Installation size ~ 18 GBRelated Jetstream resources:
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| Centos 8 (8.5) Development GUI Cloud Image Indiana University (Indiana U) Centos 8 (8.5) Development GUI Installation size ~ 6.6GRelated Jetstream resources:
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| Centos 7 Devel with Anaconda Cloud Image Indiana University (Indiana U) Centos 7 (7.8) Development GUI with Anaconda installed into /opt/anaconda2 Installation size ~ 9.0GB - Requires an m1.small or largerRelated Jetstream resources:
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| Centos 7 (7.8) Development GUI Cloud Image Indiana University (Indiana U) Centos 7 (7.8) Development GUI Installation size ~ 4.5GBRelated Jetstream resources:
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| Ubuntu 20.04 Devel and Docker Cloud Image Indiana University (Indiana U) Ubuntu 20.04 LTS Development + GUI support + Docker Based on Ubuntu cloud image for 20.04 LTS with basic dev tools, GUI/Xfce added Installation size ~ 4.2 GBRelated Jetstream resources:
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| Matlab Minimal Cloud Image Indiana University (Indiana U) Matlab R2018a with Update 6 built on Ubuntu 18.04 LTS Development + GUI support + Docker Based on Ubuntu cloud image for 18.04 LTS with basic dev tools, GUI/Xfce added Installation size ~ 15 GB -- requires m1.small or larger Installation folder: /opt/MATLAB/R2018a Products: MATLAB Bioinformatics Toolbox 4.10 Curve Fitting Toolbox 3.5.7 Database Toolbox 8.1 Econometrics Toolbox 5.0 Financial Toolbox 5.11 Global Optimization Toolbox 3.4.4 Image Processing Toolbox 10.2 Neural Network Toolbox 11.1 Optimization Toolbox 8.1 Parallel Computing Toolbox 6.12 Partial Differential Equation Toolbox 3.0 Statistics and Machine Learning Toolbox 11.3 Symbolic Math Toolbox 8.1 SimuLink is NOT installed!Related Jetstream resources:
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| Ubuntu 18.04 Devel and Docker Cloud Image Indiana University (Indiana U) Ubuntu 18.04 LTS Development + GUI support + Docker Based on Ubuntu cloud image for 18.04 LTS with basic dev tools, GUI/Xfce added Installation size ~ 4.4 GBRelated Jetstream resources:
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| Galaxy Standalone Cloud Image Indiana University (Indiana U) Galaxy Server Standalone Based on Ubuntu cloud image for 18.04 LTS with basic dev tools, GUI/Xfce added Runs on port 8080 by default -- access as http://your_ip:8080 Installation size ~ 9.8 GB Requires an m1.medium or larger to run. Information on administering Galaxy may be found here: https://galaxyproject.org/admin/ Galaxy help is here: https://help.galaxyproject.org/ Galaxy dir is /opt/galaxy/galaxyRelated Jetstream resources:
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| RStudio Desktop - Shiny Server Cloud Image Indiana University (Indiana U) RStudio Desktop 1.3.1073 and R 4.0.3 and Shiny Server v1.5.16.958 built on Ubuntu 20.04 LTS Development + GUI support + Docker Based on Ubuntu cloud image for 20.04 LTS with basic dev tools, GUI/Xfce added Shiny port is 3838 - /srv/shiny-server is the data directory /opt/r-packages is R package repository Installation size ~ 6.4 GB -- imaged on an m1.smallRelated Jetstream resources:
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| Matlab 2021a - Ubuntu 20.04 Cloud Image Indiana University (Indiana U) Matlab R2021a install - requires an m1.medium or larger Based on Ubuntu 20.04 LTS Development + GUI support + Docker Installation size ~ 31GBRelated Jetstream resources:
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| Pyspark-Ubuntu18.04-instance Cloud Image Indiana University (Indiana U) This image has python3, java8, scala, spark3, hadoop and jupyter notebook pre-installed for I535 AssignmentRelated Jetstream resources:
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| Qiime2 toolkit Cloud Image Indiana University (Indiana U) QIIME2 Toolkit- Quantitative Insights into Microbial Ecology is an open-source bioinformatics pipeline for performing microbiome analysis from raw DNA sequencing data.Related Jetstream resources:
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| IU-BL-I535-MGMT-DATA Cloud Image Indiana University (Indiana U) This is a VM for IU Bloomington class INFO I535 - Management, Access and Uses of Big Data.Related Jetstream resources:
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| PonyLinux Cloud Image Indiana University (Indiana U) This image comes packed with a fun game for learning your way around the command line in Unix! Using ponysay and bash, this game walks you through the basics of command syntax, navigation, and dealing with files. If you want logins to work and full details, make sure you add this as a deployment script url: https://raw.githubusercontent.com/NCGAS/PonyLinux/master/Developerutilities/jetstreamboot.shRelated Jetstream resources:
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| DoaneBIO316_2020 Cloud Image Indiana University (Indiana U) Ubuntu 18.04 LTS + Xfce desktop, Anaconda Python 3.7, BiopythonRelated Jetstream resources:
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| Frog Call Analysis Cloud Image Indiana University (Indiana U) HALF of workflow for bioacoustic analysis by Random Forest. Complete with minimalist documentationRelated Jetstream resources:
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| Frog Call Analysis Secure Cloud Image Indiana University (Indiana U) HALF of workflow for bioacoustic analysis by Random Forest. *****Intermittent image to check for security holes.Related Jetstream resources:
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| Bioacoustic Data Collection Cloud Image Indiana University (Indiana U) Workflow for collecting and visualizing data from a bioacoustic recording device to full visualization of R spectrograms in a Drupal website.Related Jetstream resources:
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| bgRAMOSE - Genomics Software Cloud Image Indiana University (Indiana U) This image provides a platform for Brendel Group RAMOSE workflows for computational genomics. Our RAMOSE philosophy and promise: we take every effort to design our workflows such that a user can generate reproducible, accurate, and meaningful results; our software is open (source), scalable, and easy to use (so that a typical genome laboratory team should be able to run it). And, of course, our software should be ramose (having many branches; see also the ramosa pathway in grass genomics ...) - it is yours to use, modify, improve, enhance, ...Related Jetstream resources:
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| REUexercise1 Cloud Image Indiana University (Indiana U) This was an exercise for the REU Jetstream programRelated Jetstream resources:
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