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1. LR_Methyation LR_Methyation Public

   Analysis scripts for comparison between EPIC and Nanopore methylation data

   R

2. the_geometry_of_hidden_representations_protein the_geometry_of_hidden_representations_protein Public

   Repository for the code of the paper: "The geometry of hidden representations of protein language models" (bioRxiv, 2022)

   Jupyter Notebook

3. nf-core/tumourevo nf-core/tumourevo Public

   Analysis pipeline to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and mutational signature deconvolution)

   Nextflow 20 5

4. diegodoimo/geometry_representations diegodoimo/geometry_representations Public

   Python 5

5. RitAreaSciencePark/Narrow-gate RitAreaSciencePark/Narrow-gate Public

   This repo contains the code for replicating the figures of the paper: The Narrow Gate: Localized Image-Text Communication in Vision-Language Models (NeurIPS 2025)

   Python 1