Open Science - SMILIES - reSilient coMputer archItectures and LIfE Sciences

Look at our GitHub projects

atlas-experiments

Code and workflows to reproduce the results from the ATLAS multi-omic trajectory inference paper.

0
0
Python
June 23, 2026

atlas-smilies

Python package for multi-omic trajectory inference from paired single-cell RNA-seq and ATAC-seq data.

5
0
Python
August 26, 2026

BiSDL

Biology Systems Description Language (BiSDL): a high-level modeling language for biological systems and processes.

0
0
Python
August 13, 2026

BOS-miRNA-Enrichment

Computational pipeline to perform miRNA targets enrichment in pathways involved in Bronchiolitis Obliterates Syndrome development.

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0
PHP
June 22, 2026

CARACAS

No description available.

1
0
MATLAB
January 19, 2026

This repository accompanies a study on multimodal physiological monitoring of cognitive workload using wearable sensors. While the complete raw dataset is hosted on Zenodo, this GitHub repository contains the documentation and code necessary to understand the experimental protocol and use the data.

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Jupyter Notebook
July 8, 2026

Coherence

Coherence: evolutionary design space exploration and co-simulation for optimized biofabrication protocols.

0
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Python
August 13, 2026

cRNA-seq-interneurons-markers-analysis

Meta-analysis of scRNA-seq markers for mammalian cortex interneuron subtype discrimination.

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R
June 22, 2026

EHWGesture

EHWGesture - A dataset for multimodal understanding of clinical gestures. Accepted at SAUAFG Workshop of ICCV 2025.

6
1
Python
May 19, 2026

Elastic-Spiking-Transformers

Elastic Spiking Transformer, a novel neural network architecture that embeds runtime adaptability directly into the spiking paradigm.

3
0
Unknown
May 27, 2026

GAGAM

Genomic Annotated Gene Activity Matrix (GAGAM) for integrating scATAC-seq accessibility and scRNA-seq expression.

1
0
Unknown
June 22, 2026

GeoIMO

GeoIMO is a Geometry-Driven Independent Motion Classification for Event Cameras

3
1
Unknown
July 5, 2026

GH-Co-Accessibility

Pipeline for analyzing GeneHancer regulatory elements, including CIRCE-based co-accessibility networks, GeneHancer–gene associations, cell-type-specific regulatory elements, and cross-cell-type gene–GeneHancer correlation patterns.

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0
Python
July 21, 2026

GRAIGH

Gene Regulation Accessibility Integrating GeneHancer (GRAIGH): integrating GeneHancer elements with scATAC-seq data.

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0
Unknown
June 22, 2026

GRETA

No description available.

0
0
Unknown
August 19, 2026

HAMLET

HW/SW Co-Design of an FPGA Accelerator for Leighton–Micali Post-Quantum Signatures in Embedded Systems

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0
Unknown
August 26, 2026

hdltools

Python VHDL code generators

1
0
Python
May 25, 2026

HRV-PRV-Comparison

A complete pipeline for comparing cardiac variability measures derived from ECG signals and PPG signals during sleep.

1
0
Python
June 1, 2026

injectv

InjectV is a fault injection attack framework for RISC-V platforms built on the gem5 simulator. InjectV enables precise, guided fault injection at security-critical execution points, such as control-flow decisions, counters, and comparisons, allowing systematic exploration of attack vectors.

1
0
C++
July 20, 2026

LSTMeta-TNF

Fast and Accurate LSTM Meta-modeling of TNF-induced Tumor Resistance In Vitro.

1
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Jupyter Notebook
August 13, 2026

Luxia

Luxia is a Lightweight Unitary matriX-based Framework Built on an Iterative Algorithm for Photonic Neural Network Training

2
0
Python
June 11, 2026

MAGA

Meta-analysis of gene activity (MAGA) contributions and correlation with gene expression through GAGAM.

0
0
Unknown
June 22, 2026

marvin

No description available.

2
0
C
January 18, 2026

META2

META² is a meta-model for predicting the performance of meta-heuristic algorithms on arbitrary optimization problems. This repository provides instructions to build, use, and extend the model.

1
0
Python
August 13, 2026

MODA

MODA: guidelines and resources for joint scRNA-seq and scATAC-seq data analysis.

0
0
Unknown
June 22, 2026

neurotrain

NeuroTrain is an open, extensible experimental framework that enables reproducible implementations and comparisons of SNN training algorithms under shared experimental conditions.

16
1
Python
August 20, 2026

NSS

Neuronal Spike Shapes (NSS): analysis of electrophysiological cell profiles from action potential waveforms.

1
0
HTML
June 22, 2026

nwn-microbiota-antibiotic-resistence

NWN model for simulating microbiota dynamics under antibiotic resistance scenarios.

0
0
Java
June 22, 2026

nwn-snakes

Extension of the SNAKES Petri net library adding support for Nets-within-Nets modeling.

0
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Python
June 22, 2026

NWN_CElegans_VPC_model

Nets-within-Nets Petri net model of C. elegans vulval precursor cell specification.

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0
Java
June 22, 2026

OS23_custom_rom

Presentation material and exercise solution for the OS project.

0
0
Unknown
January 2, 2024

OS_project_QEMU_Cripto

No description available.

0
0
Unknown
January 2, 2024

patch-seq-sample-enrichment

Sample size enrichment for single-cell multimodal low-throughput Patch-seq datasets.

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R
June 22, 2026

PhysiBench

Curated intracellular Boolean models and multiscale simulation trajectories for computational biology benchmarking.

1
0
Python
August 13, 2026

PhysiSandS

PhysiS&S implements the Start & Stop add-on for PhysiCell and PhysiBoSS, enabling simulations to pause based on time or cell conditions, save system-state snapshots, and resume from saved states. This repository includes code and instructions to reproduce the results from the Start&Stop paper.

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0
C++
August 13, 2026

QtNets

No description available.

0
0
Unknown
February 28, 2017

RLoscillators

Reinforcement learning for optimizing synthetic oscillatory biological networks.

0
0
Python
June 22, 2026

rLotos

rLotos: deep reinforcement learning for design space exploration of simulated epithelial sheet biofabrication.

1
1
Python
August 13, 2026

sfatti

FPGA-based Spiking Neural Network accelerator for handwritten digit recognition, optimized for low power and speed. Built with Spiker+ framework for efficient SNN deployment on FPGA hardware.

6
0
VHDL
May 25, 2026

spike-train-scalograms

Spike train scalograms with fine-tuned CNNs for neuronal cell type classification from electrophysiological recordings.

1
0
Unknown
August 22, 2026

Spiker

Spiker is a Python-based framework for designing and generating efficient FPGA hardware accelerators for spiking neural networks, covering training, optimization, and automatic VHDL generation for edge AI deployment.

56
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Python
August 24, 2026

SpikExplorer

SpikeExplorer is a multi-objective (accuracy, latency, power) design space exploration tool able to optimize Spiking Neural Networks models to be deployed on hardware accelerators.

2
0
Unknown
May 22, 2026

spiking-neurons-comparison

Comparative study of event-driven vs clock-driven LIF spiking neuron implementations. Includes software simulation, FPGA hardware deployment, and analysis of decay strategies across multiple datasets (MNIST, N-MNIST, AudioMNIST)

4
1
Unknown
May 25, 2026

SpikingJET

SpikingJet is a full featured fault injector for Spiking Neural networks. It enables to emulate the injection of faults in an SNN model both during training and inference and assess its effect.

4
2
Unknown
May 22, 2026

Veriside

No description available.

5
0
C++
June 23, 2026

ZeroDay_HWBasedMalwareDetection_SBOAttacks

No description available.

0
0
C
March 2, 2025