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The Open Source Stack for Biological Imaging
A speedrun through scientific imaging tools, what each of them do, concrete scientific use cases and infrastructure principles.
 • 
Kenny Workman
GPU peak calling for epigenetics
A deep dive on an important algorithm for ATAC/ChIP-seq analysis // an accelerated implementation with ~15x speed improvements
 • 
Kenny Workman
, 
Harihara Muralidharan
, and 
Brontë Kolar
How does arthritis actually work?
The immunology of rheumatoid arthritis. Tracing an experimental campaign, looking at current treatments and exploring mechanisms for new drugs.
 • 
Kenny Workman
1

December 2024

You can now run single-cell experiments in a tube with 4.5 hours of hands-on time
A new and accessible single-cell sequencing technology and its impact on progress in biotech
 • 
Kenny Workman
Ask questions about your single cell data with natural language
An end-to-end single cell analysis workflow for bench scientists. Construct AnnData objects from S3 + Benchling. Automatic cell type annotation. Query…
 • 
Kenny Workman
 and 
Hannah Le
A Guide to Customer Analysis for Sequencing Kit Providers
Create bundles of analysis tools, distribute redeemable codes with kits, monitor analysis status and troubleshoot issues with customers
 • 
Kenny Workman

November 2024

How to Engineer Therapeutic AAVs
exploring public viral packaging + biodistribution data from Dyno Tx // how to use scientific plots to answer important biological questions about…
 • 
Hannah Le
 and 
Zhen Yang
Product Digest: Latch Plots, Protein Engineering and GPU-enabled Bioinformatics
a replacement for GraphPad Prism + Excel // an open conference for data infrastructure // a suite of molecular design tools for protein engineering …
 • 
LatchBio
Virtual Screening for New Antibiotics: A Machine Learning Approach to LpxC Inhibition
A computational search through 250,000 compounds for tomorrow's antibiotics against gram-negative bacteria
 • 
Brontë Kolar
1
A new visualization software for biotech
Biologists need tools that keep pace with their demands for integration, transparency, and collaboration.
 • 
Hannah Le
 and 
Alfredo Andere
GPU-enabled Bioinformatics
why bioinformatics will move to accelerated hardware // benchmarks for nf-core/methylseq on GPUs // collaborate on our assay roadmap
 • 
Kenny Workman
 and 
Harihara Muralidharan

October 2024

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