tsikup

pathology-whole-slide-data

A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.

covid19-xray-cnn

A CNN model for predicting COVID19 from X-ray chest images.

dr-classification

Diabetic retinopathy classification network

ece-upatras-thesis-template

A LaTeX thesis template for ECE Dep., University of Patras.

ki-halftime-latex-template

This is an unofficial LaTeX template for the PhD's half-time report at Karolinska Institutet.

multiresolution-clam

This is the repo for our EMBC-2023 paper, "Multiresolution Self-Supervised Feature Integration via Attention Multiple Instance Learning for Histopathology Analysis"

my_utils

Several utility functions used in all my (deep-learning) projects.

pytorch_models

A collection of pytorch models and utility methods that I use for any deep-learning project.

wsi_data

tsikup/ki-halftime-latex-template

This is an unofficial LaTeX template for the PhD's half-time report at Karolinska Institutet.

tsikup/multiresolution-clam

This is the repo for our EMBC-2023 paper, "Multiresolution Self-Supervised Feature Integration via Attention Multiple Instance Learning for Histopathology Analysis"

tsikup/alvis-intro

Introduction slides for Alvis

tsikup/Atten_Deep_MIL

Attention-based Deep MIL implementation and application

tsikup/AttentionDeepMIL

Implementation of Attention-based Deep Multiple Instance Learning in PyTorch

tsikup/my_utils

Several utility functions used in all my (deep-learning) projects.

tsikup/pytorch_models

A collection of pytorch models and utility methods that I use for any deep-learning project.

tsikup/tsik.me

My personal website powered by Jekyll and al-folio.

tsikup/wsi_data

tsikup/CD-Net

tsikup/CLAM

Data-efficient and weakly supervised computational pathology on whole slide images - Nature Biomedical Engineering

tsikup/DeepLearningExamples

Deep Learning Examples

tsikup/DeepPATH

Classification of Lung cancer slide images using deep-learning

tsikup/er-stratified-training-tp53-prediction

tsikup/evaluateCutpoints

evaluateCutpoints is a R package for multiple cutpoints determination in biomedical research.

tsikup/hass-config

✨ A different take on designing a Lovelace UI (Dashboard)

tsikup/he_preprocessing

A collection of preprocessing tools for H&E slide analysis, developed and used for my PhD project.

tsikup/histocartography

Histocartography is a framework bringing together AI and Digital Pathology

tsikup/machine-learning-articles

🧠💬 Articles I wrote about machine learning, archived from MachineCurve.com.

tsikup/Machine-Learning-Collection

A resource for learning about ML, DL, PyTorch and TensorFlow. Feedback always appreciated :)

tsikup/multiresolution_histopathology

Code for paper: "Unveiling the Power of Model-Agnostic Multiscale Analysis for Enhancing Artificial Intelligence Models in Breast Cancer Histopathology Images"

tsikup/NeighborhoodCoordination

Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive front"

tsikup/pathology-streaming-pipeline

Use streaming to train whole-slides images with single image-level labels, by reducing GPU memory requirements with 99%.

tsikup/pathology-whole-slide-data

A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.

tsikup/ProLesA-Net

The current repository serves as the placeholder for the ProLesA-Net model

tsikup/PytorchDigitalPathology

An implementation of Unet for pytorch designed for digital pathology segmentation

tsikup/QuPath-IntelliJ-Template

This is a template project for QuPath development on IntelliJ

tsikup/spams-python

A rehost of the python version of SPArse Modeling Software (SPAMS)

tsikup/stainlib

Python 3 library for the augmentation & normalization of H&E images

tsikup/XAI

Papers and code of Explainable AI esp. w.r.t. Image classificiation