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@ratschlab

Biomedical Informatics at ETH Zurich

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  1. RGAN RGAN Public

    Recurrent (conditional) generative adversarial networks for generating real-valued time series data.

    Python 644 180

  2. SOM-VAE SOM-VAE Public

    TensorFlow implementation of the SOM-VAE model as described in https://arxiv.org/abs/1806.02199

    Python 196 32

  3. GP-VAE GP-VAE Public

    TensorFlow implementation for the GP-VAE model described in https://arxiv.org/abs/1907.04155

    Python 135 30

  4. metagraph metagraph Public

    Scalable annotated de Bruijn graphs for DNA indexing, alignment, and assembly

    C++ 118 18

  5. spladder spladder Public

    Tool for the detection and quantification of alternative splicing events from RNA-Seq data.

    Python 107 33

  6. dpsom dpsom Public

    Code associated with ACM-CHIL 21 paper 'T-DPSOM - An Interpretable Clustering Method for Unsupervised Learning of Patient Health States'

    Python 68 16

Repositories

Showing 10 of 116 repositories
  • metagraph Public

    Scalable annotated de Bruijn graphs for DNA indexing, alignment, and assembly

    C++ 118 GPL-3.0 18 10 13 Updated Apr 2, 2025
  • DeepSpot Public

    DeepSpot: Leveraging Spatial Context for Enhanced Spatial Transcriptomics Prediction from H&E Images

    Jupyter Notebook 25 MIT 4 1 1 Updated Apr 2, 2025
  • HistoPlexer Public
    Python 0 0 1 0 Updated Mar 30, 2025
  • metagraph-aws Public

    Metagraph Query System on AWS

    Shell 0 GPL-3.0 0 0 0 Updated Mar 28, 2025
  • sshash Public Forked from jermp/sshash

    A compressed, associative, exact, and weighted dictionary for k-mers.

    C++ 0 MIT 18 0 1 Updated Mar 17, 2025
  • winn Public

    R package for metabolomics data correction using a multi-step pipeline

    R 0 0 0 0 Updated Mar 13, 2025
  • readfish Public Forked from LooseLab/readfish

    CLI tool for flexible and fast adaptive sampling on ONT sequencers

    Python 0 GPL-3.0 36 0 0 Updated Mar 11, 2025
  • ICMSeg Public
    Python 0 0 0 0 Updated Mar 8, 2025
  • he2st Public

    Code of the paper "DeepSpot: Leveraging Spatial Context for Enhanced Spatial Transcriptomics Prediction from H&E Images"

    Jupyter Notebook 4 MIT 1 0 0 Updated Feb 18, 2025
  • metagraph_paper_resources Public

    This repository contains resources related to the manuscript describing the MetaGraph framework

    Jupyter Notebook 1 0 0 0 Updated Feb 16, 2025

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