Johannes Hingerl
@johahi.bsky.social
ML for regulatory genomics. PhD student @ Gagneurlab
johahi.github.io
johahi.github.io
The speedup does not come at the cost of accuracy:
Flashzoi matches or improves upon Borzoi’s performance across benchmarks, including RNA-seq coverage prediction, variant effect prediction (GTEx eQTLs), and enhancer-gene linking.
Flashzoi matches or improves upon Borzoi’s performance across benchmarks, including RNA-seq coverage prediction, variant effect prediction (GTEx eQTLs), and enhancer-gene linking.
October 13, 2025 at 11:53 AM
The speedup does not come at the cost of accuracy:
Flashzoi matches or improves upon Borzoi’s performance across benchmarks, including RNA-seq coverage prediction, variant effect prediction (GTEx eQTLs), and enhancer-gene linking.
Flashzoi matches or improves upon Borzoi’s performance across benchmarks, including RNA-seq coverage prediction, variant effect prediction (GTEx eQTLs), and enhancer-gene linking.
On GTEx eQTLs, Flashzoi showed significantly improved correlation with observed variant effects and maintained Borzoi's performance in eQTL prioritization. Explore methods and more results in the paper! Find the code at github.com/johahi/borzoi-pytorch, and models at huggingface.co/johahi/.
December 23, 2024 at 12:16 PM
On GTEx eQTLs, Flashzoi showed significantly improved correlation with observed variant effects and maintained Borzoi's performance in eQTL prioritization. Explore methods and more results in the paper! Find the code at github.com/johahi/borzoi-pytorch, and models at huggingface.co/johahi/.
Flashzoi offers a slight but consistent improvement in the accuracy of genomic profile predictions compared to Borzoi, while delivering speed gains of up to 3x for both prediction (inference) and training or fine-tuning.
December 23, 2024 at 12:16 PM
Flashzoi offers a slight but consistent improvement in the accuracy of genomic profile predictions compared to Borzoi, while delivering speed gains of up to 3x for both prediction (inference) and training or fine-tuning.
Introducing Flashzoi⚡! We’ve upgraded the Borzoi model with rotary pos. encodings and FlashAttention, resulting in a significant speedup with similar or better accuracy for faster variant effect prediction, quicker model development and more efficient genomic analysis www.biorxiv.org/content/10.1...
December 23, 2024 at 12:16 PM
Introducing Flashzoi⚡! We’ve upgraded the Borzoi model with rotary pos. encodings and FlashAttention, resulting in a significant speedup with similar or better accuracy for faster variant effect prediction, quicker model development and more efficient genomic analysis www.biorxiv.org/content/10.1...