{ "id": 280172, "title": "Top GitHub Source Codes on Cell Instance Segmentation", "url": "/competitions/sartorius-cell-instance-segmentation/discussion/280172", "author_name": "", "post_date": "2021-10-20T18:48:12.961447600Z", "votes": 28, "comment_count": 7, "views": 0, "content": "

Here I have chosen top source codes on this topic.

\n

An implementation of Mask R-CNN designed for single-cell instance segmentation in the context of multiplexed tissue imaging https://github.com/dpeerlab/MaskRCNN_cell

\n

A tool for cell instance aware segmentation in densely packed 3D volumetric images https://github.com/hci-unihd/plant-seg

\n

Attention-Based Transformers for Instance Segmentation of Cells in Microstructures https://github.com/ChristophReich1996/Cell-DETR

\n

cell-instance-segmentation
\nhttps://github.com/ericryanchan/cell-instance-segmentation

\n

Transformer Assisted Convolutional Neural Network for Cell Instance Segmentation https://github.com/dsciitism/SegPC-2021

\n

Weakly Supervised Cell Instance Segmentation by Propagating from Detection Response
\n https://github.com/naivete5656/WSISPDR

\n

Deep Semi-supervised Knowledge Distillation for Overlapping Cervical Cell Instance Segmentation https://github.com/SIAAAAAA/MMT-PSM

\n

instance-segmentation-of-cells
\nhttps://github.com/whiteyunjie/instance-segmentation-of-cells

\n

Cell-Instance-Segmentation project
\nhttps://github.com/ZjGaothu/Cell-Instance-Segmentation

\n

Pretrained deep learning models for cell instance segmentation, to be used with HistoFlow https://github.com/luminosuslight/pathology-pretrained-models

\n

Multi-scale Cell Instance Segmentation with Keypoint Graph based Bounding Boxeshttps://github.com/yijingru/KG_Instance_Segmentation

\n

Attentive Neural Cell Instance Segmentation
\nhttps://github.com/yijingru/ANCIS-Pytorch

\n

Context-refined neural cell instance segmentation
\n https://github.com/yijingru/CRNCIS-Pytorch

\n

Instance segmentation for nuclei and cells based on facebookresearch maskrcnn benchmark https://github.com/maxsenh/nuclei_cell_detect

\n

Instance Segmentation of Cells in Phase Contrast
\nhttps://github.com/Con-Mi/PhaseContrast-Segementation

\n

UNet for Instance Cell Segmentation on Pytorch
\nhttps://github.com/PARMAGroup/UNet-Instance-Cell-Segmentation

\n

MULTICLASS WEIGHTED LOSS FOR INSTANCE SEGMENTATION OF CLUTTERED CELLS https://github.com/MaxQureshi/dsegmentation

\n

Simple Tensorflow demonstration of bacterial cell (instance) segmentation in phase contrast microscopy images https://github.com/levinejh/simple-cell-seg-demo

\n

If I could help you improve your model please do not forget to upvote which also motivates me to help you more. Thank you for reading.

", "messages": [ { "id": "1551618", "postDate": "10/20/2021 18:48:12", "content": "

Here I have chosen top source codes on this topic.

\n

An implementation of Mask R-CNN designed for single-cell instance segmentation in the context of multiplexed tissue imaging https://github.com/dpeerlab/MaskRCNN_cell

\n

A tool for cell instance aware segmentation in densely packed 3D volumetric images https://github.com/hci-unihd/plant-seg

\n

Attention-Based Transformers for Instance Segmentation of Cells in Microstructures https://github.com/ChristophReich1996/Cell-DETR

\n

cell-instance-segmentation
\nhttps://github.com/ericryanchan/cell-instance-segmentation

\n

Transformer Assisted Convolutional Neural Network for Cell Instance Segmentation https://github.com/dsciitism/SegPC-2021

\n

Weakly Supervised Cell Instance Segmentation by Propagating from Detection Response
\n https://github.com/naivete5656/WSISPDR

\n

Deep Semi-supervised Knowledge Distillation for Overlapping Cervical Cell Instance Segmentation https://github.com/SIAAAAAA/MMT-PSM

\n

instance-segmentation-of-cells
\nhttps://github.com/whiteyunjie/instance-segmentation-of-cells

\n

Cell-Instance-Segmentation project
\nhttps://github.com/ZjGaothu/Cell-Instance-Segmentation

\n

Pretrained deep learning models for cell instance segmentation, to be used with HistoFlow https://github.com/luminosuslight/pathology-pretrained-models

\n

Multi-scale Cell Instance Segmentation with Keypoint Graph based Bounding Boxeshttps://github.com/yijingru/KG_Instance_Segmentation

\n

Attentive Neural Cell Instance Segmentation
\nhttps://github.com/yijingru/ANCIS-Pytorch

\n

Context-refined neural cell instance segmentation
\n https://github.com/yijingru/CRNCIS-Pytorch

\n

Instance segmentation for nuclei and cells based on facebookresearch maskrcnn benchmark https://github.com/maxsenh/nuclei_cell_detect

\n

Instance Segmentation of Cells in Phase Contrast
\nhttps://github.com/Con-Mi/PhaseContrast-Segementation

\n

UNet for Instance Cell Segmentation on Pytorch
\nhttps://github.com/PARMAGroup/UNet-Instance-Cell-Segmentation

\n

MULTICLASS WEIGHTED LOSS FOR INSTANCE SEGMENTATION OF CLUTTERED CELLS https://github.com/MaxQureshi/dsegmentation

\n

Simple Tensorflow demonstration of bacterial cell (instance) segmentation in phase contrast microscopy images https://github.com/levinejh/simple-cell-seg-demo

\n

If I could help you improve your model please do not forget to upvote which also motivates me to help you more. Thank you for reading.

", "rawMarkdown": "**Here I have chosen top source codes on this topic.**\n\n\n\n\nAn implementation of Mask R-CNN designed for single-cell instance segmentation in the context of multiplexed tissue imaging [https://github.com/dpeerlab/MaskRCNN_cell](url)\n\nA tool for cell instance aware segmentation in densely packed 3D volumetric images [https://github.com/hci-unihd/plant-seg](url)\n\nAttention-Based Transformers for Instance Segmentation of Cells in Microstructures [https://github.com/ChristophReich1996/Cell-DETR](url)\n\ncell-instance-segmentation \n[https://github.com/ericryanchan/cell-instance-segmentation](url)\n\nTransformer Assisted Convolutional Neural Network for Cell Instance Segmentation [https://github.com/dsciitism/SegPC-2021](url)\n\nWeakly Supervised Cell Instance Segmentation by Propagating from Detection Response\n [https://github.com/naivete5656/WSISPDR](url)\n\nDeep Semi-supervised Knowledge Distillation for Overlapping Cervical Cell Instance Segmentation [https://github.com/SIAAAAAA/MMT-PSM](url)\n\ninstance-segmentation-of-cells \n[https://github.com/whiteyunjie/instance-segmentation-of-cells](url)\n\nCell-Instance-Segmentation project \n[https://github.com/ZjGaothu/Cell-Instance-Segmentation](url)\n\nPretrained deep learning models for cell instance segmentation, to be used with HistoFlow [https://github.com/luminosuslight/pathology-pretrained-models](url)\n\nMulti-scale Cell Instance Segmentation with Keypoint Graph based Bounding Boxes[https://github.com/yijingru/KG_Instance_Segmentation](url)\n\nAttentive Neural Cell Instance Segmentation\n[https://github.com/yijingru/ANCIS-Pytorch](url)\n\nContext-refined neural cell instance segmentation\n [https://github.com/yijingru/CRNCIS-Pytorch](url)\n\nInstance segmentation for nuclei and cells based on facebookresearch maskrcnn benchmark [https://github.com/maxsenh/nuclei_cell_detect](url)\n\nInstance Segmentation of Cells in Phase Contrast\n[https://github.com/Con-Mi/PhaseContrast-Segementation](url)\n\nUNet for Instance Cell Segmentation on Pytorch \n[https://github.com/PARMAGroup/UNet-Instance-Cell-Segmentation](url)\n\nMULTICLASS WEIGHTED LOSS FOR INSTANCE SEGMENTATION OF CLUTTERED CELLS [https://github.com/MaxQureshi/dsegmentation](url)\n\nSimple Tensorflow demonstration of bacterial cell (instance) segmentation in phase contrast microscopy images [https://github.com/levinejh/simple-cell-seg-demo](url)\n\n\n***If I could help you improve your model please do not forget to upvote which also motivates me to help you more. Thank you for reading.***", "votes": null }, { "id": "1551653", "postDate": "10/20/2021 19:40:55", "content": "

Thanks. This is a very useful list.

", "rawMarkdown": "Thanks. This is a very useful list.", "votes": null }, { "id": "1551670", "postDate": "10/20/2021 20:01:56", "content": "

You are welcome. Glad to help you

", "rawMarkdown": "You are welcome. Glad to help you", "votes": null }, { "id": "1551772", "postDate": "10/20/2021 21:09:31", "content": "

Nice collection, thanks for sharing🙌

", "rawMarkdown": "Nice collection, thanks for sharing🙌", "votes": null }, { "id": "1557013", "postDate": "10/25/2021 10:22:46", "content": "

Hi, All the links takes me to the discussion topic of this competition, pls check. Thanks

", "rawMarkdown": "Hi, All the links takes me to the discussion topic of this competition, pls check. Thanks", "votes": null }, { "id": "1586280", "postDate": "11/18/2021 00:48:40", "content": "

Thank you for sharing.
\nAs @meenakshiramaswamy pointed it out, the links leads us to wrong sites.
\nI would appreciate it if you would correct it.

", "rawMarkdown": "Thank you for sharing.\nAs @meenakshiramaswamy pointed it out, the links leads us to wrong sites.\nI would appreciate it if you would correct it.", "votes": null }, { "id": "1602188", "postDate": "12/01/2021 20:40:49", "content": "

Yeah, the links redirect to https://www.kaggle.com/c/sartorius-cell-instance-segmentation/discussion/url, but if you just copy-paste the link text then it will lead you to the proper repositories.

", "rawMarkdown": "Yeah, the links redirect to https://www.kaggle.com/c/sartorius-cell-instance-segmentation/discussion/url, but if you just copy-paste the link text then it will lead you to the proper repositories.", "votes": null }, { "id": "1603105", "postDate": "12/02/2021 10:47:02", "content": "

Ok, thanks.

", "rawMarkdown": "Ok, thanks.", "votes": null } ], "comments": [ { "id": 1551653, "author_name": "rluethy", "author_url": "", "post_date": "10/20/2021 19:40:55", "content": "

Thanks. This is a very useful list.

", "votes": null, "replies": [ { "id": 1551670, "author_name": "abbosjon", "author_url": "", "post_date": "10/20/2021 20:01:56", "content": "

You are welcome. Glad to help you

", "votes": null, "replies": [] } ] }, { "id": 1551772, "author_name": "soumya9977", "author_url": "", "post_date": "10/20/2021 21:09:31", "content": "

Nice collection, thanks for sharing🙌

", "votes": null, "replies": [] }, { "id": 1557013, "author_name": "meenakshiramaswamy", "author_url": "", "post_date": "10/25/2021 10:22:46", "content": "

Hi, All the links takes me to the discussion topic of this competition, pls check. Thanks

", "votes": null, "replies": [] }, { "id": 1586280, "author_name": "osamurai", "author_url": "", "post_date": "11/18/2021 00:48:40", "content": "

Thank you for sharing.
\nAs @meenakshiramaswamy pointed it out, the links leads us to wrong sites.
\nI would appreciate it if you would correct it.

", "votes": null, "replies": [ { "id": 1602188, "author_name": "soumya9977", "author_url": "", "post_date": "12/01/2021 20:40:49", "content": "

Yeah, the links redirect to https://www.kaggle.com/c/sartorius-cell-instance-segmentation/discussion/url, but if you just copy-paste the link text then it will lead you to the proper repositories.

", "votes": null, "replies": [] }, { "id": 1603105, "author_name": "osamurai", "author_url": "", "post_date": "12/02/2021 10:47:02", "content": "

Ok, thanks.

", "votes": null, "replies": [] } ] } ], "raw_markdown_by_id": { "1551618": "**Here I have chosen top source codes on this topic.**\n\n\n\n\nAn implementation of Mask R-CNN designed for single-cell instance segmentation in the context of multiplexed tissue imaging [https://github.com/dpeerlab/MaskRCNN_cell](url)\n\nA tool for cell instance aware segmentation in densely packed 3D volumetric images [https://github.com/hci-unihd/plant-seg](url)\n\nAttention-Based Transformers for Instance Segmentation of Cells in Microstructures [https://github.com/ChristophReich1996/Cell-DETR](url)\n\ncell-instance-segmentation \n[https://github.com/ericryanchan/cell-instance-segmentation](url)\n\nTransformer Assisted Convolutional Neural Network for Cell Instance Segmentation [https://github.com/dsciitism/SegPC-2021](url)\n\nWeakly Supervised Cell Instance Segmentation by Propagating from Detection Response\n [https://github.com/naivete5656/WSISPDR](url)\n\nDeep Semi-supervised Knowledge Distillation for Overlapping Cervical Cell Instance Segmentation [https://github.com/SIAAAAAA/MMT-PSM](url)\n\ninstance-segmentation-of-cells \n[https://github.com/whiteyunjie/instance-segmentation-of-cells](url)\n\nCell-Instance-Segmentation project \n[https://github.com/ZjGaothu/Cell-Instance-Segmentation](url)\n\nPretrained deep learning models for cell instance segmentation, to be used with HistoFlow [https://github.com/luminosuslight/pathology-pretrained-models](url)\n\nMulti-scale Cell Instance Segmentation with Keypoint Graph based Bounding Boxes[https://github.com/yijingru/KG_Instance_Segmentation](url)\n\nAttentive Neural Cell Instance Segmentation\n[https://github.com/yijingru/ANCIS-Pytorch](url)\n\nContext-refined neural cell instance segmentation\n [https://github.com/yijingru/CRNCIS-Pytorch](url)\n\nInstance segmentation for nuclei and cells based on facebookresearch maskrcnn benchmark [https://github.com/maxsenh/nuclei_cell_detect](url)\n\nInstance Segmentation of Cells in Phase Contrast\n[https://github.com/Con-Mi/PhaseContrast-Segementation](url)\n\nUNet for Instance Cell Segmentation on Pytorch \n[https://github.com/PARMAGroup/UNet-Instance-Cell-Segmentation](url)\n\nMULTICLASS WEIGHTED LOSS FOR INSTANCE SEGMENTATION OF CLUTTERED CELLS [https://github.com/MaxQureshi/dsegmentation](url)\n\nSimple Tensorflow demonstration of bacterial cell (instance) segmentation in phase contrast microscopy images [https://github.com/levinejh/simple-cell-seg-demo](url)\n\n\n***If I could help you improve your model please do not forget to upvote which also motivates me to help you more. Thank you for reading.***", "1551653": "Thanks. This is a very useful list.", "1551670": "You are welcome. Glad to help you", "1551772": "Nice collection, thanks for sharing🙌", "1557013": "Hi, All the links takes me to the discussion topic of this competition, pls check. Thanks", "1586280": "Thank you for sharing.\nAs @meenakshiramaswamy pointed it out, the links leads us to wrong sites.\nI would appreciate it if you would correct it.", "1602188": "Yeah, the links redirect to https://www.kaggle.com/c/sartorius-cell-instance-segmentation/discussion/url, but if you just copy-paste the link text then it will lead you to the proper repositories.", "1603105": "Ok, thanks." }, "source": "meta" }