genomics

Mentors and Regional Facilitators

Name	Region	Skills	Interests
Alyssa Pivirotto	ACCESS CSSN, Campus Champions	bash bioinformatics biology conda data-analysis data-science genomics github more...	arcgis machine-learning
Carrie Brown	CAREERS, ACCESS CSSN, CCMNet	bioinformatics cleanup community-outreach data-wrangling distributed-computing genomics github github-pages more...
Cindy Cheng		abstract affiliations ai archiving artificial-intelligence azure backup benchmarking more...
David Carlson	ACCESS CSSN, OnDemand	bash bioinformatics biology gatk genomics ookami python r more...	ACCESS bash bioinformatics containers genomics
Daniel Morales	Campus Champions	ACCESS ACCESS-allocations ACCESS-credits adding-users allocation-management anaconda bash batch-jobs more...	ACCESS ACCESS-allocations allocation-management bioinformatics biology community-outreach conda deep-learning more...
Diana Toups Dugas	Campus Champions	bioinformatics biology genomics proposal-development research-facilitation software-carpentry training workforce-development
Feseha Abebe-Akele	CCMNet	abstract ACCESS ACCESS-account ACCESS-allocations ACCESS-credits ACCESS-website account adding-users more...	ACCESS ACCESS-allocations account ACES administering-hpc ai allocations-extension allocations-proposal more...
Jordan Hayes	Campus Champions	acls administering-hpc amber anaconda api atlas aws bash more...
Jeremiah Olugbami		abstract affiliations bioinformatics biology chemistry citation genomics hardware more...
Konda Reddy Karnati	Campus Champions	ACCESS ACCESS-account artificial-intelligence bash big-data bioinformatics campus-champions centos more...
shuai liu	ACCESS CSSN	ai anaconda azure big-data bioinformatics biology containers data-analysis more...
Nil Mu	CCMNet	artificial-intelligence bioinformatics computer-science data-science genomics hpc-arch-and-perf hpc-cluster-architecture hpc-operations more...
Nicholas Panchy	Campus Champions	bash bioinformatics biology conda easybuild genomics modules open-ondemand more...
Russell Hofmann	ACCESS CSSN, CCMNet	computational-chemistry data-analysis data-science dft gaussian genomics gromacs kubernetes more...	administering-hpc cluster-support computational-chemistry data-analysis data-science dft gaussian genomics more...
Rob Harbert	Northeast	anaconda batch-jobs big-data bioinformatics biology distributed-computing genomics gis more...
Xiaoqin Huang	ACCESS CSSN	ACCESS-account ACCESS-credits adding-users affinity-group allocations-extension allocations-proposal amber anaconda more...	ACCESS-credits ACCESS-website adding-users affinity-group allocations-extension allocations-proposal amber anaconda more...
Wesley Brashear	ACCESS CSSN, Campus Champions	bioinformatics biology genomics python r
William Lai	ACCESS CSSN	administering-hpc ai anaconda archiving backup bash bioinformatics biology more...	administering-hpc ai archiving bash benchmarking big-data bioinformatics biology more...
Yun Shen	CAREERS, Northeast, ACCESS CSSN, CCMNet	big-data bioinformatics data-analysis data-science genomics open-ondemand programming Programming more...

Users

Name	Roles	Skills	Interests
Carrie Brown	mentor steering committee	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...
Chris Hemme	researcher/educator	anaconda big-data bioinformatics biology data-analysis genomics r	anaconda big-data bioinformatics biology data-analysis genomics python r
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
Matt Ferguson	researcher/educator	ACCESS ai anaconda bash bioinformatics biology c charmm more...	ACCESS ACCESS-account ACCESS-allocations ACCESS-credits ACCESS-website ai amber anaconda more...
Sanguthevar Ra…	researcher/educator	ai big-data bioinformatics biology computational-chemistry data-analysis data-science deep-learning more...
Stanley Nwoji	researcher/educator	anaconda aws azure big-data c c++ community-outreach conda more...	big-data community-outreach conda data-analysis deep-learning genomics image-processing julia more...
William Feng	student facilitator	bioinformatics biology data-analysis genomics java programming programming-best-practices python more...
Yun Shen	mentor	big-data bioinformatics data-analysis data-science genomics open-ondemand Programming programming more...

Projects

Project Title	Project Institution	Project Owner	Tags	Status
High throughput Python pipeline to identify Horizontal Gene Transfer	Cabrini University	Vinayak Mathur	bioinformatics, biology, data-wrangling, genomics, github, python, workflow	Halted
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
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
Discovering the Structure, Function, and Evolution of Sirtuins and Associated Proteins in Aiptasia: A Deep Learning and Integrative Genomics Approach	Wilmington University	Anita Schwartz	deep-learning, genomics, hpc-tools, NSF ACCESS Resources	Complete
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, docker, genomics	Complete
Coral Genomics: An assessment of metabolic pathways and genes influencing coral bleaching. Implications for the development of hydra as a model organism.	Wilmington University	Anita Schwartz	genomics	Complete

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Announcements

Title	Date
Ookami Webinar	02/14/24

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People with Expertise

Kenneth Acosta

Rutgers University - New Brunswick

Programs

CAREERS, ACCESS CSSN

Roles

student-facilitator

A portrait of Kenneth Acosta visiting Cold Spring Harbor Laboratory.

Expertise

bash

biology

conda

genomics

+9 more tags

Carrie Brown

Pennsylvania State University

Programs

CAREERS, ACCESS CSSN, CCMNet

Roles

mentor, cssn, steering committee, CCMNet

Expertise

cleanup

community-outreach

distributed-computing

+12 more tags

Ifeoma Ugwuanyi

Rutgers University-Newark

Programs

CAREERS

Roles

student-facilitator

Expertise

biology

data-analysis

genomics

python

+2 more tags

People with Interest

Ifeoma Ugwuanyi

Rutgers University-Newark

Programs

CAREERS

Roles

student-facilitator

Interests

anaconda

big-data

bioinformatics

biology

data-analysis

+5 more tags

Shawn Sivy

The College of New Jersey

Programs

Campus Champions, CAREERS

Roles

research computing facilitator, ci systems engineer

Interests

administering-hpc

amber

ansible

astrophysics

authentication

+88 more tags

Stanley Nwoji

Harrisburg University of Science and Technology

Programs

CAREERS

Roles

researcher/educator

Stanley Nwoji, Ph.D.

Interests

big-data

community-outreach

conda

data-analysis

deep-learning

+20 more tags