bioinformatics

Mentors and Regional Facilitators

Name	Region	Skills	Interests
Brett Milash	RMACC	bioinformatics python
Carrie Brown	CAREERS	bioinformatics cleanup community-outreach data-wrangling distributed-computing genomics github github-pages more...
Diana Toups Dugas	RMACC, SWEETER, Campus Champions	bioinformatics biology genomics proposal-development research-facilitation software-carpentry technical-training-for-hpc training more...
Jordan Hayes	Campus Champions	acls administering-hpc amber anaconda api atlas aws bash more...
Jacob Pessin	Northeast	aws bash batch-jobs big-data bioinformatics cloud-storage cluster-support cyverse more...
Juan Vanegas	Northeast	bash batch-jobs bioinformatics compiling conda environment-modules hpc-cluster-build hpc-operations more...
Larry Feinstein	Northeast	bioinformatics
shuai liu		ai anaconda azure big-data bioinformatics biology containers data-analysis more...
Nick Dusek	Campus Champions	administering-hpc anaconda bash batch-jobs bioinformatics compiling containers data-transfer more...
Nect Admin	Great Plains, Northeast, RMACC	astrophysics bioinformatics cgroups data-lifecycle deep-learning file-transfer	science gateway
Rob Harbert	Northeast	anaconda batch-jobs big-data bioinformatics biology distributed-computing genomics geographic-information-system more...
Shane Sanders	Campus Champions	bioinformatics c c++ containers machine-learning programming python research-grants more...	archiving big-data data-analysis data-compliance data-lifecycle data-management data-reproducibility data-retention more...
Ying Zhang	CAREERS	bioinformatics	bioinformatics deep-learning
Yun Shen	CAREERS, Northeast	big-data bioinformatics data-analysis data-science genomics open-ondemand programming PROGRAMMING LANGUAGES, FRAMEWORKS AND IDEs more...

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Affinity Groups

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Users

Name	Roles	Skills	Interests
Carrie Brown	mentor	bioinformatics cleanup community-outreach data-wrangling distributed-computing genomics github github-pages more...
Emma Strand	student facilitator	anaconda archiving bash big-data bioinformatics biology community-outreach data-analysis more...
Eren Ada	student facilitator	anaconda bash big-data bioinformatics biology community-outreach compiling dependencies more...
Chris Hemme	researcher/educator	anaconda big-data bioinformatics biology data-analysis genomics r	anaconda big-data bioinformatics biology data-analysis genomics python r
Hening Cui	student facilitator	bioinformatics biology cleanup data-analysis java machine-learning natural-language-processing neural-networks more...
Ifeoma Ugwuanyi	student facilitator	bioinformatics biology data-analysis genomics python r sql	anaconda big-data bioinformatics biology data-analysis data-wrangling genomics python more...
Kenneth Acosta	student facilitator	bash bioinformatics biology conda genomics github pip python more...	batch-jobs cluster-management cluster-support data-management data-transfer distributed-computing programming-best-practices scheduling
Vinayak Mathur	researcher/educator	bioinformatics biology genomics
Lenore Martin	researcher/educator	administering-hpc amber anaconda backup bash bioinformatics biology charmm more...	administering-hpc ai amber anaconda bioinformatics biology charmm community-outreach more...
Xiaoluo Jiao	student facilitator	bioinformatics biology cleanup data-management data-reproducibility data-wrangling genomics git more...	python sql
William Feng	student facilitator	bioinformatics biology data-analysis genomics java programming programming-best-practices python more...
Ying Zhang	mentor researcher/educator	bioinformatics	bioinformatics deep-learning
Younes Shafter	student facilitator	anaconda big-data bioinformatics computational-chemistry ddocent deep-learning fastx gatk more...
Yun Shen	mentor	big-data bioinformatics data-analysis data-science genomics open-ondemand programming PROGRAMMING LANGUAGES, FRAMEWORKS AND IDEs more...

Resources

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Projects

Project Title	Project Institution	Project Owner	Tags	Status
Develop a data portal for the organization of molecular and imaging data	University of Rhode Island -- Bay Campus	Gaurav Khanna	archiving, aws, bioinformatics, biology, CLOUD, DATA STORAGE, MGMT and MVMT, docker, genomics	In Progress
High throughput Python pipeline to identify Horizontal Gene Transfer	Cabrini University	Vinayak Mathur	bioinformatics, biology, data-wrangling, genomics, github, python, workflow	In Progress
Metagenomic analysis to identify gene clusters associated with IgA production	SUNY Upstate Medical University	Joel Wilmore	bioinformatics, biology, genomics, python, r, research-facilitation	Finishing Up
Deep convolutional neural networks (dCNN) for image segmentation, instance labeling, and tracking.	University of Delaware	Anita Schwartz	bash, bioinformatics, computational-chemistry, debugging, machine-learning, programming, python, scripting, slurm, software-installation, tensorflow	Complete
Parallel analysis of variants in multiple bear genomes: algorithmic solutions	Rutgers University–Camden	Galen Collier	Data-Facing, bioinformatics	Complete
Assembly and Taxonomic Profiling of Metagenomic Sequences using Deep Learning	University of Rhode Island	Gaurav Khanna	ai, bioinformatics, biology, deep-learning, gpu, hardware, machine-learning, neural-networks, python	Complete
Host-symbiont population genomics - analyzing the intraspecific variability of methanogenic archaeal endosymbionts of genus Methanocorpusculum hosted by a marine anaerobic ciliate Metopus sp. (Metopida)	University of Rhode Island -- Bay Campus	Gaurav Khanna	bioinformatics, biology, genomics	Complete

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