bioinformatics

Mentors and Regional Facilitators

Name	Region	Skills	Interests
Brett Milash	RMACC	bioinformatics python
Carrie Brown	CAREERS, ACCESS CSSN	bioinformatics cleanup community-outreach data-wrangling distributed-computing genomics github github-pages more...
Balamurugan Desinghu	ACCESS CSSN, Campus Champions, CAREERS, Northeast	ai anaconda api bash batch-jobs benchmarking big-data bioinformatics more...	affinity-group ai allocations-proposal amber anaconda archiving backup bash more...
Diana Toups Dugas	RMACC, SWEETER, Campus Champions	bioinformatics biology genomics proposal-development research-facilitation software-carpentry training workforce-development
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	ACCESS CSSN	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
Nicholas Panchy	Campus Champions	bash bioinformatics biology conda easybuild genomics modules ondemand more...
Rob Harbert	Northeast	anaconda batch-jobs big-data bioinformatics biology distributed-computing genomics gis 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...
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...
William 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...
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...
Ying Zhang	CAREERS	bioinformatics	bioinformatics deep-learning
Yun Shen	CAREERS, Northeast, ACCESS CSSN	big-data bioinformatics data-analysis data-science genomics ondemand Programming programming more...

Users

Name	Roles	Skills	Interests
Balamurugan Desinghu	mentor researcher/educator rcf	ai anaconda api bash batch-jobs benchmarking big-data bioinformatics more...	affinity-group ai allocations-proposal amber anaconda archiving backup bash more...
Jacob Pessin	mentor	aws bash batch-jobs big-data bioinformatics cloud-storage cluster-support cyverse more...
Juan Vanegas	mentor	bash batch-jobs bioinformatics compiling conda environment-modules hpc-cluster-build hpc-operations more...
Kendra Batchelder	student facilitator	bioinformatics r	image-processing
Larry Feinstein	mentor	bioinformatics
Michael Sundue	researcher/educator	bioinformatics
Nect Admin	cise	astrophysics bioinformatics cgroups data-lifecycle deep-learning file-transfer	science-gateway
Rob Harbert	mentor	anaconda batch-jobs big-data bioinformatics biology distributed-computing genomics gis more...
Yun Shen	mentor	big-data bioinformatics data-analysis data-science genomics ondemand programming Programming more...

Projects

Project Title	Project Institution Sort descending	Project Owner	Tags	Status
Developing Portable and Reusable Computational Biology Modules		Chris Wilson	bioinformatics, data-reproducibility, docker, genomics	Complete
Genome Sequencing of the Bornean Rock Frog	Smith College	Lisa Mangiamele	big-data, bioinformatics, genomics	In Progress
Analyzing Pathogenic Clinical Isolates Genomes to Identify Horizontal Gene Transfer of Antibiotic-Resistance Genes	University of Maine at Presque Isle	Larry Whitsel	big-data, bioinformatics, hpc-storage	Complete
Big Data Portal For Sharing Real-world Bioinformatics Data Sets to the Public Domain	University of Maine, Augusta	Bruce Segee	big-data, bioinformatics, data-management, data-wrangling, hpc-storage, metadata, science-gateway, storage	Complete
Understanding Mechanical Properties of Bio-interfaces with HPC Molecular Simulations	University of Vermont	Juan Vanegas	bioinformatics, computational-chemistry, gromacs, molecular-dynamics, mpi, python	Complete

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Affinity Groups

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Announcements

Title	Date
Ookami Webinar	02/14/24
2024 HuBMAP Underrepresented Student Internship Program	10/31/23
Open Call: Minisymposia for PASC24	10/05/23

Upcoming Events & Trainings

No events or trainings are currently scheduled.

Topics from Ask.CI

Resources

Title	Category	Tags	Skill Level
Optimizing Research Workflows - A Documentation of Snakemake	Docs	documentation, data-analysis, data-reproducibility, workflow, bioinformatics, data-science, python	Intermediate, Advanced
Samtools Documentation	Docs	documentation, data-analysis, bioinformatics, data-science, genomics	Beginner, Intermediate, Advanced
Bioinformatics Workflow Management with Nextflow	Docs	cloud-computing, parallelization, data-management, bioinformatics, training	Beginner, Intermediate

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Engagements

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People with Expertise

Nect Admin

Worcester Polytechnic Institute

Programs

Great Plains, Northeast, RMACC

Roles

administrator, ci systems engineer

Expertise

astrophysics

cgroups

deep-learning

+1 more tags

William Feng

Rutgers University-New Brunswick

Programs

CAREERS

Roles

student-facilitator

Expertise

biology

data-analysis

genomics

java

+5 more tags

Kendra Batchelder

University of Maine at Presque Isle

Programs

Northeast

Roles

student-facilitator

Expertise

r

People with Interest

yaniv kovalski

Stonehill College

Programs

Northeast

Roles

student-facilitator

Interests

ai

big-data

bioinformatics

cluster-management

data-analysis

+4 more tags

Emanuela Riglioni

Programs

ACCESS CSSN

Roles

student-facilitator

Portrait E.Riglioni

Interests

ai

anaconda

api

aws

azure

+40 more tags

Frédéric Chevalier

Texas Biomedical Research Institute

Programs

Campus Champions

Roles

researcher/educator, domain champion

Interests

benchmarking

bioinformatics

biology

data-reproducibility

image-processing

+3 more tags