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Medical

Gifsplanation via Latent Shift for Counterfactual Generation

February 19, 2021 Joseph Paul Cohen

The goal of a prediction explanation method is to identify features which are relevant to the prediction of a neural network and convey that information […]

TorchXRayVision: A library for chest X-ray datasets and models. Including pre-trained models

January 4, 2021 Joseph Paul Cohen

  TorchXRayVision: A library for chest X-ray datasets and models. Including pre-trained models. Motivation: While there are many publications focusing on the prediction of radiological […]

Chester the AI Radiology Assistant

January 31, 2019 Joseph Paul Cohen

Deep learning has shown promise to augment radiologists and improve the standard of care globally. Two main issues that complicate deploying these systems are patient […]

The Latent Transcriptome

October 8, 2018 Joseph Paul Cohen

In this work we propose a method to compute continuous embeddings for kmers from raw RNA-seq data of the transcriptome, without the need for alignment […]

Gene Graph Convolutions

June 8, 2018 Joseph Paul Cohen

We discuss how gene-gene interaction graphs (same pathway, protein-protein, co-expression, or research paper text association) can be used to impose a bias on a deep […]

Feature Hallucination in Medical Image Translation

May 8, 2018 Joseph Paul Cohen

We discuss how image translation research can lead to the misdiagnosis of medical conditions. This can cause an issue when the data provided in the […]

Count-ception: Heterogeneous cell counting

March 8, 2017 Joseph Paul Cohen

This work develops a method to count heterogeneous objects, such as cell nuclei or sealions. We develop a deep learning based system to that takes […]

Selected Projects

  • Gifsplanation via Latent Shift for Counterfactual Generation

    February 19, 2021
  • TorchXRayVision: A library for chest X-ray datasets and models. Including pre-trained models

    January 4, 2021
  • Building a public COVID-19 dataset of X-ray and CT scans

    March 21, 2020
  • Icentia11k ECG Dataset

    October 1, 2019
  • Chester the AI Radiology Assistant

    January 31, 2019
  • ShortScience.org – share summaries of research papers

    April 15, 2016
  • BlindTool – A mobile app that gives a “sense of vision” to the blind with deep learning

    December 31, 2015
  • Academic Torrents – A Platform for Sharing Data

    October 15, 2013
  • Blucat – netcat for Bluetooth

    September 26, 2012
Presentations
  • Medical Imaging with Deep Learning Tutorial

    July 13, 2020
  • Generalization challenges and making models right for the right reasons in medicine

    February 14, 2020
  • Representation learning

    February 10, 2020
  • Machine Learning for Medical Text and EHR (word2vec, RNNs)

    December 20, 2018
  • Distribution Matching Losses Can Hallucinate Features in Medical Image Translation

    September 20, 2018
  • A survey of deep learning approaches to medical applications

    February 1, 2018
  • Working with a Raspberry Pi

    October 29, 2015
  • High Performance Computing How-To

    February 28, 2015
References
  • Dealing with internet restricted compute nodes in a cluster

    August 16, 2019
  • Research Advice

    February 16, 2019
  • Printing through an SSH server to LP

    April 18, 2018
  • Machine Learning and Deep Learning References

    April 13, 2017
  • Jupyter notebook and HPC systems

    February 16, 2017
  • Visualizing CNN architectures side by side with mxnet

    January 14, 2016
  • Cyber Security Competition Study Guide

    September 7, 2015
  • Visualization of Attribute Subset Wrapper Search Space

    January 31, 2015
Reports
  • Let’s stop reviewing for publishers that profit from research

    July 8, 2021
  • No more page numbers

    February 7, 2018
  • Visualizing CNN architectures side by side with mxnet

    January 14, 2016
  • HRSC vs HiRISE Martian Imagery

    December 2, 2013
  • Open Letter: Students Facing a Systematic Disadvantage at UMass Boston

    March 24, 2013
Software
  • TorchXRayVision: A library for chest X-ray datasets and models. Including pre-trained models

    January 4, 2021
  • JoeGlass (MyGlass Replacement)

    December 23, 2013
  • UMass Boston Wifi Autologin

    October 26, 2012
  • Blucat – netcat for Bluetooth

    September 26, 2012
  • Pojo Explorer for Java

    July 3, 2012
  • GravityScript – add gravity to websites for fun

    April 20, 2011

2023 Joseph Paul Cohen