ratschlab

Repositories

• projects-2020-Neural-SVGD

  Nonparametric variational inference by transporting samples along a dynamically learned trajectory.
  Jupyter Notebook 0 1 0 1 Updated Feb 14, 2021

• metagraph

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

  graph dna genome-graph sequence-alignment scalable-search de-bruijn-graph differential-assembly
  C++ 2 26 5 14 Updated Feb 13, 2021

• immunopepper

  Code for the ImmunoPepper project
  Python 0 0 2 0 Updated Feb 12, 2021

• Project2020-seq-tensor-sketching
  C++ MIT 0 2 10 1 Updated Feb 12, 2021

• row_diff

  RowDiff transform for sparsification of graph annotations
  Jupyter Notebook MIT 0 0 0 0 Updated Feb 11, 2021

• projects2020-disentangled-gpvae

  Learning disentangled representations from time series.
  Python MIT 0 1 0 0 Updated Feb 8, 2021

• pmvae
  Jupyter Notebook MIT 0 1 0 0 Updated Feb 8, 2021

• tools-gogo-gadget

  A tool to aggregate custom command line tools into one.
  Python MIT 1 2 0 0 Updated Feb 8, 2021

• projects2019-string-embedding
  C++ 0 0 0 1 Updated Feb 2, 2021

• spladder

  Tool for the detection and quantification of alternative splicing events from RNA-Seq data.
  Python 26 75 29 0 Updated Jan 31, 2021

• renku-mls

  MLSchema plugin for Renku

  data-science machine-learning semantic-web knowledge-graph
  Python Apache-2.0 1 2 0 0 Updated Jan 19, 2021

• mlschema-model-converters
  Python BSD-3-Clause 0 2 5 1 Updated Jan 19, 2021

• pancanatlas_code_public

  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  Python MIT 14 30 3 0 Updated Jan 18, 2021

• tools-omicstools

  Collection of tools and utilities for *omics analyses
  Python MIT 0 1 0 0 Updated Nov 20, 2020

• scim

  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  Jupyter Notebook LGPL-3.0 1 9 0 1 Updated Nov 17, 2020

• SVGP-VAE

  Tensorflow implementation for the SVGP-VAE model.
  Python MIT 1 3 0 0 Updated Nov 15, 2020

• GP-VAE

  TensorFlow implementation for the GP-VAE model described in https://arxiv.org/abs/1907.04155
  Python MIT 10 46 0 2 Updated Nov 13, 2020

• SOM-VAE

  TensorFlow implementation of the SOM-VAE model as described in https://arxiv.org/abs/1806.02199
  Python MIT 23 148 0 1 Updated Nov 13, 2020

• metagraph_paper_resources

  This repository contains resources related to the manuscript describing the MetaGraph framework
  Jupyter Notebook 0 0 0 0 Updated Oct 18, 2020

• tex-theses-phd-proposal-ajoudaki

  Amir's research proposal
  TeX 0 0 0 0 Updated Oct 9, 2020

• boosting-bbvi
  Python MIT 5 7 0 0 Updated Sep 15, 2020

• nextflow

  Forked from nextflow-io/nextflow

  A DSL for data-driven computational pipelines
  Groovy Apache-2.0 309 0 0 0 Updated Aug 28, 2020

• circEWS

  circEWS public code
  Python MIT 9 16 1 0 Updated Aug 3, 2020

• dpsom

  Code associated with arXiv manuscript 'DPSOM: Deep Probabilistic Clustering with Self-Organizing Maps'
  Python MIT 8 29 0 0 Updated Aug 3, 2020

• ssPATHS

  pathway scoring method, bioconductor version
  R 0 0 0 0 Updated Jul 23, 2020

• rDiff

  Tests for Differential RNA Isoform Expression
  C 2 5 4 1 Updated Jun 19, 2020

• ratschlab-common

  Library of common Python code used across various projects
  Jupyter Notebook MIT 0 1 0 0 Updated Jun 8, 2020

• covidtracker-backend

  Forked from covidtracker-ch/backend

  COVID-19 Tracker
  Java 1 0 0 0 Updated Apr 11, 2020

• SNBNMF-mutsig-public

  Supervised Negative Binomial NMF for Mutational Signature Discovery
  Python MIT 0 2 0 0 Updated Jan 30, 2020

• projects2019-boosting-bbvi-pyro
  Python MIT 0 0 3 1 Updated Dec 19, 2019