2020 Essential Open Source Software for Science Meeting

December 8-10, 2020

The 2020 EOSS meeting brought together grantees, program advisors, funders, researchers, and CZI staff. This three-day virtual event was an opportunity to build connections among the maintainers of these projects, foster collaborations, and have open conversations about the challenges faced and potential solutions. Watch recordings of the meeting below and learn more about the Open Science program.

Keynote: Diversity and Inclusion in Open Source Digital Infrastructure Projects

Speaker

Laura Dabbish, Carnegie Mellon University

Keynote: Portrait of a Black Hole and Beyond

Speaker

Katie Bouman, California Institute of Technology

Keynote: The Potential of University-based Open Source Programs Offices

Speaker

Sayeed Choudhury, Johns Hopkins University

Keynote: Frugal Science

Speaker

Manu Prakash, Stanford University

Overview of CZ Science

Speakers

Cori Bargmann, Rockefeller University
Phil Smoot, former Head of Technology at the Chan Zuckerberg Initiative

What's Next for EOSS?

Speaker

Dario Taraborelli, Chan Zuckerberg Initiative

Day 1 Demos: Imaging & Experimental Tooling

DeepLabCut
PsychoPy / PsychoJS
scikit-image
Dash

Day 1 Demos: Data Analysis & Machine Learning

Galaxy
NumPy
SciPy
scikit-learn

Day 1 Demos: Reproducibility & Workflow Management

Rocker Project
CWL
Nextflow
nf-core

Day 1 Demos: Genomics

ETE Toolkit
GATK for Bacteria
QIIME 2
Salmon

Day 1 Demos: Structural Biology

OpenMM
OpenSWATH and OpenMS
MSstats
Percolator

Day 2 Demos: Imaging & Microscopy

QuPath
Nibabel
elastix toolbox
OHIF Viewer and Cornerstone

Day 2 Demos: Network Analysis & Data Representation

NetworkX
igraph
Zarr
Xarray

Day 2 Demos: Collaboration & Documentation

JupyterHub
Jupyter Real Time Collaboration
Read the Docs
CiteAs

Day 2 Demos: Genomics

MACS3
OpenCRAVAT
IQ-TREE
libSBML and Deviser

Day 2 Demos: Clinical Tooling

OpenSim (1)
OpenSim (2)
mixtools and tolerance
Open DBDP

Day 3 Demos: Imaging & Microscopy

ilastik
ITK-SNAP
Micro-Manager
Open Microscopy Environment
Software Heritage

Day 3 Demos: Analytics & Continuous Integration

Apache Arrow
Dask
Bioconductor Build System
pip
CHAOSS / Augur

Day 3 Demos: Knowledge Management & Documentation

Protégé
OpenRefine
Gene Wiki
Software Citation Checklist
JOSS

Day 3 Demos: Visualization & Bioinformatics

Matplotlib
Bokeh
HTSJDK
bcbio-nextgen
bedtools and Go Get Data

Day 3 Demos: Single-cell Biology

Seurat / Azimuth
Scanpy
Monocle
UCSC Xena
dynverse