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    32 repositories

    • pimms

      Public
      Imputing proteomics data using deep learning models
      Python
      •
      GNU General Public License v3.0
      •2•17•1•1•Updated Oct 9, 2024Oct 9, 2024

    • MOVE

      Public
      MOVE (Multi-Omics Variational autoEncoder) for integrating multi-omics data and identifying cross modal associations
      pythonintegrationbayesian-inferencemulti-modalvariational-inferencevariationalvariational-autoencodermulti-omicsassociations-inference
      Jupyter Notebook
      •
      MIT License
      •25•63•11•2•Updated Oct 1, 2024Oct 1, 2024

    • vamb

      Public
      Variational autoencoder for metagenomic binning
      Python
      •
      MIT License
      •45•248•37•4•Updated Sep 23, 2024Sep 23, 2024

    • python_package

      Public template
      Example Python package
      pythontemplate-project
      Python
      •
      MIT License
      •0•1•0•0•Updated Sep 9, 2024Sep 9, 2024

    • thesis_template_sund

      Public
      PhD thesis template using styling from the faculty of health and medical sciences (short SUND in Danish)
      TeX
      •0•0•0•0•Updated Sep 9, 2024Sep 9, 2024

    • hela_qc_mnt_data

      Public
      Functionality for processing and analysing HeLa data quality control (QC) and maintenance (MNT) samples processed by MaxQuant
      maxquanthela-cells
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 19, 2024Aug 19, 2024

    • thesis_template

      Public archive
      Template of thesis for overleaf at Copenhagen University
      TeX
      •1•0•0•0•Updated Jul 25, 2024Jul 25, 2024

    • phamb

      Public
      Downstream processing of VAMB binning for Viral Elucidation
      Python
      •
      MIT License
      •8•44•13•1•Updated Jul 3, 2024Jul 3, 2024

    • git-tutorial

      Public
      VS Code on Binder
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •62•0•1•1•Updated Jun 18, 2024Jun 18, 2024

    • njab

      Public
      Not just another biomarkers: Functionality for biomarker discovery
      Python
      •
      MIT License
      •1•1•1•0•Updated Jun 7, 2024Jun 7, 2024

    • CLASTER

      Public
      Modeling nascent RNA transcription from chromatin landscape and structure
      Jupyter Notebook
      •0•1•0•0•Updated May 30, 2024May 30, 2024

    • PSYCH-VAE

      Public
      Python
      •1•0•0•0•Updated May 27, 2024May 27, 2024

    • taxconverter

      Public
      Unifies the presentation of taxonomic classifiers output
      Python
      •
      MIT License
      •0•1•1•0•Updated May 14, 2024May 14, 2024

    • cr2_usage_bot

      Public
      Send cr2 usage on computerome to a Slack channel.
      Python
      •0•0•0•0•Updated May 3, 2024May 3, 2024

    • list_your_publications

      Public
      Query your list of publications using ORCID and DOI APIs
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 27, 2024Apr 27, 2024

    • EIR

      Public
      A toolkit for training deep learning models on genotype, tabular, sequence, image, array and binary data.
      Python
      •
      GNU Affero General Public License v3.0
      •5•1•0•0•Updated Jan 19, 2024Jan 19, 2024

    • cirrhosis_death

      Public
      Predict who dies from newly diagnosed cirrhosis
      Jupyter Notebook
      •0•0•0•0•Updated Dec 28, 2023Dec 28, 2023

    • paper_template

      Public
      An Overleaf template for an initial journal submission and a preprint
      TeX
      •
      MIT License
      •2•1•0•0•Updated Nov 19, 2023Nov 19, 2023

    • vCentenarian

      Public
      Repository with supporting code and information for virome analysis of Centenarian metagenomes
      Python
      •3•3•1•0•Updated Sep 28, 2023Sep 28, 2023

    • HAPI

      Public
      Script to run HAPI (Haplotype-Aware Probabilistic model for Indels) to identify the CCR5delta32 deletion in ancient low coverage dna samples
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 14, 2023Aug 14, 2023

    • avamb

      Public archive
      Variational autoencoder for metagenomic binning
      Python
      •
      MIT License
      •45•1•0•1•Updated May 15, 2023May 15, 2023

    • vamb-aamb

      Public
      Variational and Adversarial autoencoders for metagenomic binning
      Python
      •
      MIT License
      •45•0•0•0•Updated Jan 10, 2023Jan 10, 2023

    • avamb-1

      Public
      Variational autoencoder for metagenomic binning
      Python
      •
      MIT License
      •45•0•0•0•Updated Dec 23, 2022Dec 23, 2022

    • IntroToML

      Public
      Machine Learning course at Copenhagen University, Faculty of Health and Medical Sciences, Center for Health Data Science
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •9•4•0•0•Updated May 25, 2022May 25, 2022

    • PythonTsunami

      Public
      Jupyter Notebook
      •
      MIT License
      •14•0•0•0•Updated May 23, 2022May 23, 2022

    • PSYCH-Pred

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated May 17, 2022May 17, 2022

    • decision-making-vaes

      Public
      Decision based on models using the latent encoding (approx. posterior)
      Python
      •4•0•0•0•Updated May 11, 2022May 11, 2022

    • nbi-jupyter-docker-stacks

      Public
      A collection of docker jupyterlab/notebook images used at the University of Copenhagen/NBI
      Jupyter Notebook
      •
      MIT License
      •7•0•0•0•Updated May 13, 2021May 13, 2021

    • ONT_assembly

      Public
      Python
      •0•0•0•0•Updated Dec 16, 2020Dec 16, 2020

    • vamb_cami2

      Public
      Pipeline for running VAMB on CAMI2 datasets
      Python
      •0•0•0•0•Updated Oct 19, 2020Oct 19, 2020