1 code implementation • 7 Oct 2024 • Rabin Adhikari, Safal Thapaliya, Manish Dhakal, Bishesh Khanal
This work presents an open-source benchmarking framework, TuneVLSeg, to integrate various unimodal and multimodal prompt tuning techniques into VLSMs, making prompt tuning usable for downstream segmentation datasets with any number of classes.
1 code implementation • 10 May 2024 • Manish Dhakal, Rabin Adhikari, Safal Thapaliya, Bishesh Khanal
Foundation Vision-Language Models (VLMs) trained using large-scale open-domain images and text pairs have recently been adapted to develop Vision-Language Segmentation Models (VLSMs) that allow providing text prompts during inference to guide image segmentation.
no code implementations • 18 Mar 2024 • Kanchan Poudel, Lisasha Poudel, Prabin Raj Shakya, Atit Poudel, Archana Shrestha, Bishesh Khanal
Most studies proposing AI models retrospectively use a relatively small number of already collected images from specific devices, digital cameras, or smartphones; the challenges and protocol for quality image acquisition during VIA in resource-constrained camp settings, challenges in getting gold standard, data imbalance, etc.
no code implementations • 26 Feb 2024 • Bidur Khanal, Prashant Shrestha, Sanskar Amgain, Bishesh Khanal, Binod Bhattarai, Cristian A. Linte
Label noise in medical image classification datasets significantly hampers the training of supervised deep learning methods, undermining their generalizability.
no code implementations • 15 Jan 2024 • Bidur Khanal, Binod Bhattarai, Bishesh Khanal, Cristian Linte
In this study, we address three key questions: i) How does label noise impact various medical image classification datasets?
1 code implementation • 24 Sep 2023 • Mahesh Shakya, Bishesh Khanal
Our results show that attention-based methods that capture global spatial relationships tend to perform better across all anatomies and datasets; performance on clinically relevant subgroups may be overestimated without disaggregated reporting; ribs are substantially more difficult to reconstruct compared to femur, hip and spine; and the dice score improvement does not always bring a corresponding improvement in the automatic estimation of clinically relevant parameters.
1 code implementation • 22 Sep 2023 • Rabin Adhikari, Manish Dhakal, Safal Thapaliya, Kanchan Poudel, Prasiddha Bhandari, Bishesh Khanal
However, the lack of readily available data in echocardiography hampers the training of VLSMs.
1 code implementation • 15 Aug 2023 • Kanchan Poudel, Manish Dhakal, Prasiddha Bhandari, Rabin Adhikari, Safal Thapaliya, Bishesh Khanal
While VLSMs exhibit enhanced performance in handling pooled datasets with diverse modalities and show potential robustness to domain shifts compared to conventional segmentation models, our results suggest that novel approaches are required to enable VLSMs to leverage the various auxiliary information available through language prompts.
no code implementations • 11 Aug 2023 • Karim Lekadir, Aasa Feragen, Abdul Joseph Fofanah, Alejandro F Frangi, Alena Buyx, Anais Emelie, Andrea Lara, Antonio R Porras, An-Wen Chan, Arcadi Navarro, Ben Glocker, Benard O Botwe, Bishesh Khanal, Brigit Beger, Carol C Wu, Celia Cintas, Curtis P Langlotz, Daniel Rueckert, Deogratias Mzurikwao, Dimitrios I Fotiadis, Doszhan Zhussupov, Enzo Ferrante, Erik Meijering, Eva Weicken, Fabio A González, Folkert W Asselbergs, Fred Prior, Gabriel P Krestin, Gary Collins, Geletaw S Tegenaw, Georgios Kaissis, Gianluca Misuraca, Gianna Tsakou, Girish Dwivedi, Haridimos Kondylakis, Harsha Jayakody, Henry C Woodruf, Horst Joachim Mayer, Hugo JWL Aerts, Ian Walsh, Ioanna Chouvarda, Irène Buvat, Isabell Tributsch, Islem Rekik, James Duncan, Jayashree Kalpathy-Cramer, Jihad Zahir, Jinah Park, John Mongan, Judy W Gichoya, Julia A Schnabel, Kaisar Kushibar, Katrine Riklund, Kensaku MORI, Kostas Marias, Lameck M Amugongo, Lauren A Fromont, Lena Maier-Hein, Leonor Cerdá Alberich, Leticia Rittner, Lighton Phiri, Linda Marrakchi-Kacem, Lluís Donoso-Bach, Luis Martí-Bonmatí, M Jorge Cardoso, Maciej Bobowicz, Mahsa Shabani, Manolis Tsiknakis, Maria A Zuluaga, Maria Bielikova, Marie-Christine Fritzsche, Marina Camacho, Marius George Linguraru, Markus Wenzel, Marleen de Bruijne, Martin G Tolsgaard, Marzyeh Ghassemi, Md Ashrafuzzaman, Melanie Goisauf, Mohammad Yaqub, Mónica Cano Abadía, Mukhtar M E Mahmoud, Mustafa Elattar, Nicola Rieke, Nikolaos Papanikolaou, Noussair Lazrak, Oliver Díaz, Olivier Salvado, Oriol Pujol, Ousmane Sall, Pamela Guevara, Peter Gordebeke, Philippe Lambin, Pieta Brown, Purang Abolmaesumi, Qi Dou, Qinghua Lu, Richard Osuala, Rose Nakasi, S Kevin Zhou, Sandy Napel, Sara Colantonio, Shadi Albarqouni, Smriti Joshi, Stacy Carter, Stefan Klein, Steffen E Petersen, Susanna Aussó, Suyash Awate, Tammy Riklin Raviv, Tessa Cook, Tinashe E M Mutsvangwa, Wendy A Rogers, Wiro J Niessen, Xènia Puig-Bosch, Yi Zeng, Yunusa G Mohammed, Yves Saint James Aquino, Zohaib Salahuddin, Martijn P A Starmans
This work describes the FUTURE-AI guideline as the first international consensus framework for guiding the development and deployment of trustworthy AI tools in healthcare.
1 code implementation • 8 Aug 2023 • Bidur Khanal, Binod Bhattarai, Bishesh Khanal, Cristian A. Linte
In this work, we explore contrastive and pretext task-based self-supervised pretraining to initialize the weights of a deep learning classification model for two medical datasets with self-induced noisy labels -- NCT-CRC-HE-100K tissue histological images and COVID-QU-Ex chest X-ray images.
1 code implementation • 21 Jun 2023 • Bidur Khanal, Binod Bhattarai, Bishesh Khanal, Danail Stoyanov, Cristian A. Linte
Acquiring properly annotated data is expensive in the medical field as it requires experts, time-consuming protocols, and rigorous validation.
1 code implementation • 11 Apr 2023 • Suprim Nakarmi, Sanam Pudasaini, Safal Thapaliya, Pratima Upretee, Retina Shrestha, Basant Giri, Bhanu Bhakta Neupane, Bishesh Khanal
We evaluate the performance of four state-of-the-art object detectors to detect (oo)cysts of Giardia and Cryptosporidium on a custom dataset that includes both smartphone and brightfield microscopic images from vegetable samples.
1 code implementation • SMM4H (COLING) 2022 • Rabin Adhikari, Safal Thapaliya, Nirajan Basnet, Samip Poudel, Aman Shakya, Bishesh Khanal
Billions of people across the globe have been using social media platforms in their local languages to voice their opinions about the various topics related to the COVID-19 pandemic.
no code implementations • 31 Jul 2022 • Pratima Upretee, Bishesh Khanal
Supervised deep learning methods for semantic medical image segmentation are getting increasingly popular in the past few years. However, in resource constrained settings, getting large number of annotated images is very difficult as it mostly requires experts, is expensive and time-consuming. Semi-supervised segmentation can be an attractive solution where a very few labeled images are used along with a large number of unlabeled ones.
no code implementations • 12 May 2021 • Suman Sapkota, Bidur Khanal, Binod Bhattarai, Bishesh Khanal, Tae-Kyun Kim
Multi-domain image-to-image translation with conditional Generative Adversarial Networks (GANs) can generate highly photo realistic images with desired target classes, yet these synthetic images have not always been helpful to improve downstream supervised tasks such as image classification.
no code implementations • 19 May 2020 • Lavsen Dahal, Aayush Kafle, Bishesh Khanal
2D echocardiography is the most common imaging modality for cardiovascular diseases.
no code implementations • 31 Oct 2019 • Bidur Khanal, Lavsen Dahal, Prashant Adhikari, Bishesh Khanal
Correct evaluation and treatment of Scoliosis require accurate estimation of spinal curvature.
no code implementations • 7 Aug 2019 • Samuel Budd, Matthew Sinclair, Bishesh Khanal, Jacqueline Matthew, David Lloyd, Alberto Gomez, Nicolas Toussaint, Emma Robinson, Bernhard Kainz
Manual estimation of fetal Head Circumference (HC) from Ultrasound (US) is a key biometric for monitoring the healthy development of fetuses.
no code implementations • 5 Mar 2019 • Daniel Grzech, Loïc le Folgoc, Mattias P. Heinrich, Bishesh Khanal, Jakub Moll, Julia A. Schnabel, Ben Glocker, Bernhard Kainz
We present an implementation of a new approach to diffeomorphic non-rigid registration of medical images.
2 code implementations • 2 Aug 2018 • Nicolas Toussaint, Bishesh Khanal, Matthew Sinclair, Alberto Gomez, Emily Skelton, Jacqueline Matthew, Julia A. Schnabel
This paper addresses the task of detecting and localising fetal anatomical regions in 2D ultrasound images, where only image-level labels are present at training, i. e. without any localisation or segmentation information.
1 code implementation • 19 Jun 2018 • Yuanwei Li, Bishesh Khanal, Benjamin Hou, Amir Alansary, Juan J. Cerrolaza, Matthew Sinclair, Jacqueline Matthew, Chandni Gupta, Caroline Knight, Bernhard Kainz, Daniel Rueckert
We propose a new Iterative Transformation Network (ITN) for the automatic detection of standard planes in 3D volumes.
1 code implementation • 18 Jun 2018 • Yuanwei Li, Amir Alansary, Juan J. Cerrolaza, Bishesh Khanal, Matthew Sinclair, Jacqueline Matthew, Chandni Gupta, Caroline Knight, Bernhard Kainz, Daniel Rueckert
PIN is computationally efficient since the inference stage only selectively samples a small number of patches in an iterative fashion rather than a dense sampling at every location in the volume.
no code implementations • 1 Jun 2018 • Alberto Gomez, Veronika A. Zimmer, Bishesh Khanal, Nicolas Toussaint, Julia A. Schnabel
From the adapted graph, we also propose the computation of a dual graph, which inherits the saliency measure from the adapted graph, and whose edges run along image features, hence producing an oversegmenting graph.
1 code implementation • 2 May 2018 • Benjamin Hou, Nina Miolane, Bishesh Khanal, Matthew C. H. Lee, Amir Alansary, Steven McDonagh, Jo V. Hajnal, Daniel Rueckert, Ben Glocker, Bernhard Kainz
In this paper, we propose a general Riemannian formulation of the pose estimation problem.
no code implementations • 19 Sep 2017 • Benjamin Hou, Bishesh Khanal, Amir Alansary, Steven McDonagh, Alice Davidson, Mary Rutherford, Jo V. Hajnal, Daniel Rueckert, Ben Glocker, Bernhard Kainz
We extensively evaluate the effectiveness of our approach quantitatively on simulated Magnetic Resonance Imaging (MRI), fetal brain imagery with synthetic motion and further demonstrate qualitative results on real fetal MRI data where our method is integrated into a full reconstruction and motion compensation pipeline.