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avamb

Variational autoencoder for metagenomic binning

avamb-1

Variational autoencoder for metagenomic binning

cirrhosis_death

Predict who dies from newly diagnosed cirrhosis

cr2_usage_bot

Send cr2 usage on computerome to a Slack channel.

decision-making-vaes

Decision based on models using the latent encoding (approx. posterior)

eir

A toolkit for training deep learning models on genotype, tabular, sequence, image, array and binary data.

git-tutorial

VS Code on Binder

hapi

Script to run HAPI (Haplotype-Aware Probabilistic model for Indels) to identify the CCR5delta32 deletion in ancient low coverage dna samples

hela_qc_mnt_data

Functionality for processing and analysing HeLa data quality control (QC) and maintenance (MNT) samples processed by MaxQuant

introtoml

Machine Learning course at Copenhagen University, Faculty of Health and Medical Sciences, Center for Health Data Science

move

MOVE (Multi-Omics Variational autoEncoder) for integrating multi-omics data and identifying cross modal associations

nbi-jupyter-docker-stacks

A collection of docker jupyterlab/notebook images used at the University of Copenhagen/NBI

njab

Not just another biomarkers: Functionality for biomarker discovery

ont_assembly

paper_template

An Overleaf template for an initial journal submission and a preprint

phamb

Downstream processing of VAMB binning for Viral Elucidation

pimms

Imputing proteomics data using deep learning models

proteomics-metadata-standard

The Proteomics Experimental Design file format: Standard for experimental design annotation

psych-pred

psych-vae

pythontsunami

streptococcusmitis

In house python script used for Højholt et al. 2019

taxconverter

Unifies the presentation of taxonomic classifiers output

thesis_template

Template of thesis for overleaf at Copenhagen University

thesis_template_sund

PhD thesis template using styling from the faculty of health and medical sciences (short SUND in Danish)

vamb

Variational autoencoder for metagenomic binning

vamb-aamb

Variational and Adversarial autoencoders for metagenomic binning

vamb_cami2

Pipeline for running VAMB on CAMI2 datasets

vcentenarian

Repository with supporting code and information for virome analysis of Centenarian metagenomes