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manifest.bioimage.io.yaml
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format_version: 0.2.0
config:
id: hpa
name: HPA
tags:
- hpa
logo: >-
https://raw.githubusercontent.com/bioimage-io/tfjs-bioimage-io/master/apps/hpa-logo.gif
icon: >-
https://raw.githubusercontent.com/bioimage-io/tfjs-bioimage-io/master/apps/hpa-logo.gif
about_url: https://www.proteinatlas.org/
splash_title: The Human Protein Atlas
splash_subtitle: null
splash_feature_list: []
explore_button_text: Start Exploring
background_image: static/img/zoo-background.svg
resource_types:
- model
- application
default_type: model
application:
- id: HPA-Classification
source: >-
https://raw.githubusercontent.com/bioimage-io/tfjs-bioimage-io/master/apps/HPA-Classification.imjoy.html
model:
- id: HPAShuffleNetV2
source: >-
https://raw.githubusercontent.com/bioimage-io/tfjs-bioimage-io/master/models/HPAShuffleNetV2/HPAShuffleNetV2.model.yaml
links:
- HPA-Classification
- id: HPA-bestfitting
name: HPA-bestfitting
tags:
- classification
- densenet-121
- inception-v3
- resnet-34
- resnet-50
framework: pytorch
authors:
- Shubin Dai
license: MIT
cite: null
git_repo: >-
https://github.com/CellProfiling/HPA-competition-solutions/tree/master/bestfitting
description: >-
A CNN model using focal loss and image augmentation, optimized with Adam
optimizer.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/bestfitting/README.md
badges:
- label: HPA Competition
ext: 1st
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/bestfitting/src/bestfitting-densenet-diagram.png
- id: HPA-WAIR
name: HPA-WAIR
tags:
- classification
- densenet-121
- densenet-169
- ibn-densenet-121
- opencv
- scikit-learn
- se-resnext-50
- xception
framework: pytorch
authors:
- Jun Lan
license: MIT
git_repo: >-
https://github.com/CellProfiling/HPA-competition-solutions/tree/master/wair
description: >-
Seven CNN models, using multiple different architectures, ensembled
through averaging.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/wair/README.md
badges:
- label: HPA Competition
ext: 2nd
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- id: HPA-pudae
name: HPA-pudae
tags:
- classification
- inception-v3
- resnet-34
- se-resnext-50
framework: pytorch
authors:
- Park Jinmo
license: BSD-2-Clause
git_repo: 'https://github.com/CellProfiling/pudae-kaggle-hpa'
description: >-
An ensemble using focal loss, per image normalization and spatial
attention.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/pudae-kaggle-hpa/master/README.md
badges:
- label: HPA Competition
ext: 3rd
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- id: HPA-wienerschnitzelgemeinschaft
name: HPA-wienerschnitzelgemeinschaft
tags:
- airnet-50
- airnext-50
- cbam
- classification
- hill-climbing
- inception-resnet-v2
- inception-v3
- preresnet-50
- resnet-18
- resnet-34
- resnet-50
- resnet-101
- se-resnext-50
framework: pytorch
authors:
- Shaikat Mahmood Galib
- Christof Henkel
- Kevin Hwang
- Dmytro Poplavskiy
- Bojan Tunguz
- Russ Wolfinger
license: MIT
git_repo: >-
https://github.com/CellProfiling/HPA-competition-solutions/tree/master/wienerschnitzelgemeinschaft
description: >-
An ensemble of diverse and highly optimized CNN models, using hill
climbing and weighted voting.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/wienerschnitzelgemeinschaft/README.md
badges:
- label: HPA Competition
ext: 4th
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- id: HPA-vpp
name: HPA-vpp
tags:
- classification
- inception-v3
- inception-v4
- multilayer-perceptron
- xception
framework: pytorch
authors:
- Yinzheng Gu
- Chuanpeng Li
- Jinbin Xie
license: MIT
git_repo: 'https://github.com/CellProfiling/HPA-competition-solutions/tree/master/vpp'
description: >-
An ensemble of seven CNN models and a multi-layer perceptron network,
using image augmentation, multi scales, weighted sampling and
MultiLabelSoftMargin loss.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/vpp/README.md
badges:
- label: HPA Competition
ext: 5th
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- id: HPA-One-More
name: HPA-One More Layer Of Stacking
tags:
- bn-inception
- classification
- inception-v4
- lightgbm
- se-resnext-50
- xception
framework: pytorch
authors:
- Dmitry Buslov
- Sergei Fironov
- Alexander Kiselev
- Dmytro Panchenko
license: MIT
git_repo: >-
https://github.com/CellProfiling/HPA-competition-solutions/tree/master/one_more_layer_of_stacking
description: >-
14 CNN models ensembled via LightGBM stacking, optimized with Wadam, using
focal and LSEP loss.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/one_more_layer_of_stacking/README.md
badges:
- label: HPA Competition
ext: 8th
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- id: HPA-conv
name: HPA-conv is all you need
tags:
- classification
- inception-v3
- se-resnext-50
- xception
framework: pytorch
authors:
- Xuan Cao
- Runmin Wei
- Yuanhao Wu
- Xun Zhu
license: MIT
git_repo: >-
https://github.com/CellProfiling/HPA-competition-solutions/tree/master/conv_is_all_you_need
description: >-
An ensemble of a cropping window CNN based on Xception, and two
conventional CNNs based on SE-ResNext50 and InceptionV3.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/conv_is_all_you_need/README.md
badges:
- label: HPA Competition
ext: 10th
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- id: HPA-NTU_MiRA
name: HPA-NTU_MiRA
tags:
- classification
- resnet-34
framework: tensorflow
authors:
- Kuan-Lun Tseng
license: MIT
git_repo: >-
https://github.com/CellProfiling/HPA-competition-solutions/tree/master/ntu_mira
description: >-
A CNN with large input size (1024 ⨉ 1024 px) using fixed
batch-normalization and data distillation.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/ntu_mira/README.md
badges:
- label: HPA Competition
ext: 16th
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png
- id: HPA-Random-Walk
name: HPA-Random Walk
tags:
- attention-gate
- classification
- resnet-18
framework: pytorch
authors:
- Zhifeng Gao
- Cheng Ju
- Xiaohan Yi
- Hongdong Zheng
license: MIT
git_repo: >-
https://github.com/CellProfiling/HPA-competition-solutions/tree/master/random_walk
description: >-
An ensemble model of three different resolutions based on single attention
gated network.
documentation: >-
https://raw.githubusercontent.com/CellProfiling/HPA-competition-solutions/master/random_walk/README.md
badges:
- label: HPA Competition
ext: 38th
url: https://www.kaggle.com/c/human-protein-atlas-image-classification/leaderboard
covers:
- https://raw.githubusercontent.com/CellProfiling/HPA-model-zoo/master/hpa_challenge_header.png