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activelearning

Software and documentation from the active learning project on interactive classification.

bayesianoptimization

A Python implementation of global optimization with gaussian processes.

bmi500

BMI 500: Introduction to Biomedical Informatics

code_snippets

crowd_truth_infer

This is the framework with 17 existing crowdsourced truth inference algorithms.

detectron

FAIR's research platform for object detection research, implementing popular algorithms like Mask R-CNN and RetinaNet.

digital_slide_archive

The official deployment of the Digital Slide Archive and HistomicsTK.

extendingripleysk

Extending Ripley’s K-Function to Quantify Aggregation in 2-D Grayscale Images

fastmaskrcnn

Mask RCNN in TensorFlow

fully-connected-densenets-semantic-segmentation

Fully Connected DenseNet for Image Segmentation (https://arxiv.org/pdf/1611.09326v1.pdf)

healthcare-database-apis

Tools for interaction with various healthcare databases, including CDC, chicagohealthatlas etc

hickle

a HDF5-based python pickle replacement

histomics

Histomics analyses so far

histoqc

HistoQC is an open-source quality control tool for digital pathology slides

imagecluster

Cluster images based on image content using a pre-trained deep neural network and hierarchical clustering

install-opencv

shell scripts to install different version of OpenCV in different distributions of Linux

intro-git-demo

This code is for an introduction to Git at Emory University.

mask_rcnn

Mask R-CNN for object detection and instance segmentation on Keras and TensorFlow

metagenome_assignment

minns

Codes for our paper "Revisiting Multiple Instance Neural Networks".

misvm

Multiple-Instance Support Vector Machines

nca-python

Implementation of the NCA in python with scipy and numpy

neuralnets

Deep Learning libraries tested on images and time series

nvidia-docker

Build and run Docker containers leveraging NVIDIA GPUs

pydensecrf

Python wrapper to Philipp Krähenbühl's dense (fully connected) CRFs with gaussian edge potentials.

pytorch_tutorial

PyTorch tutorial for PyData Berlin

staintools

Tools for tissue image stain normalization and augmentation in Python 3. [python, scientific]

stanford-cs-230-deep-learning

VIP cheatsheets for Stanford's CS 230 Deep Learning

ten-rules

Ten simple rules for better figures

tensorflow

Computation using data flow graphs for scalable machine learning