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264 Commits

Author SHA1 Message Date
paoxiaode
8edcad2d80 [Dataset] Add VOCSuperpixels dataset in LRGB (#6389) 2023-10-08 14:03:27 +08:00
paoxiaode
614401ff06 [Dataset] Add peptides functional dataset in LRGB (#6363) 2023-09-26 10:22:33 +08:00
Rhett Ying
c298223f5d [GraphBolt] add BuiltinDataset into doc page (#6355) 2023-09-20 09:58:39 +08:00
Hongzhi (Steve), Chen
89bed21a21 [Graphbolt] Add more class and ops to graphbolt doc. (#6307) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-28-63.ap-northeast-1.compute.internal>
 2023-09-11 22:19:21 +08:00
Hongzhi (Steve), Chen
fa3f2f486b [Graphbolt] Introduce graphbolt doc. (#6292) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-28-63.ap-northeast-1.compute.internal>
 2023-09-07 10:03:47 +08:00
czkkkkkk
46809d2948 [Sparse] Add SparseMatrix.indices in docs. (#6092) 2023-08-03 17:04:13 +08:00
Zhiteng Li
19c7e5afc0 [NN] Add EGT Layer (#6056) 
Co-authored-by: rudongyu <ru_dongyu@outlook.com>
 2023-08-02 14:14:08 +08:00
Jiahang Li
d381f2263d [Dataset] MovieLens (#5567) 
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
Co-authored-by: Ubuntu <ubuntu@ip-172-31-17-164.ap-northeast-1.compute.internal>
 2023-06-19 16:48:27 +08:00
OlegPlatonov
921476c8c6 [Dataset] Add heterophilous graphs. (#5853) 
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2023-06-15 09:14:19 +08:00
czkkkkkk
44bcb3f8d2 [Doc] Cleanup DiagMatrix related definitions. (#5836) 2023-06-08 19:25:23 +08:00
Nick Baker
b0308c8525 [Model] Implemented PGExplainer for Heterogeneous graph (#5739) 
Co-authored-by: kxm180046 <kxm180046@utdallas.edu>
Co-authored-by: Kunal Mukherjee <kunmukh@gmail.com>
 2023-06-07 13:42:36 +08:00
Kunal Mukherjee
484fabdcc1 [Model] Implemented PGExplainer for Homogeneous graph (#5550) 
Co-authored-by: kxm180046 <kxm180046@utdallas.edu>
Co-authored-by: Infinity_X <Infinity_X@sinomo.net>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2023-05-10 20:31:48 +08:00
paoxiaode
c4c9b830ae [NN] GatedGCNConv (#5654) 2023-05-06 18:20:06 +08:00
Kunal Mukherjee
c0f346e754 [Model] Implemented SubgraphX Explainer for Heterogeneous graph (#5530) 
Co-authored-by: kxm180046 <kxm180046@utdallas.edu>
Co-authored-by: Nick Baker <ndbaker1@outlook.com>
Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2023-04-21 14:05:02 +08:00
czkkkkkk
f41934df87 [Sparse] Add conversion between DGLGraph and SparseMatrix. (#5553) 2023-04-20 18:00:34 +08:00
czkkkkkk
b57c56d9a1 [Sparse] Support broadcasting operators (#5544) 2023-04-15 10:36:12 +08:00
rudongyu
bb1f8850e5 [NN] Refactor the Code Structure of GT (#5100) 2023-04-14 11:50:14 +08:00
schmidt-ju
97286f98d3 [NN] Add EdgeGAT operator (#5282) 
Co-authored-by: Quan (Andy) Gan <coin2028@hotmail.com>
 2023-04-09 22:54:49 +08:00
Mufei Li
a244de579c [Dataset] WisconsinDataset (#5520) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-04-04 16:44:26 +08:00
Mufei Li
dd4c74ff32 [Dataset] CornellDataset and TexasDataset (#5513) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-04-03 16:16:37 +08:00
Mufei Li
2b5921e759 [Dataset] Actor (#5511) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-03-31 10:28:50 +08:00
Mufei Li
690f37bbe9 update (#5507) 
Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-03-28 19:22:44 +08:00
Mufei Li
9e532e7def [Dataset] Chameleon (#5477) 
* update

* update

* update

* lint

* update

* CI

* lint

* update doc

---------

Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-03-23 22:34:00 +08:00
ZhenyuLU_Heliodore
4534650f5f [Dataset] Add ZINC Dataset (#5428) 
* Update dgl.data.rst

* Add files via upload

* Add files via upload

* Add files via upload

* Update zinc.py

* Update dgl.data.rst

* Update test_data.py

* Add files via upload

* Update cluster.py

* Update pattern.py

* Update zinc.py

* Update zinc.py

* Update test_data.py

* lint

* fix

* fix path

* update test on label shape

---------

Co-authored-by: rudongyu <ru_dongyu@outlook.com>
 2023-03-22 18:04:41 +08:00
Gleb Bazhenov
54b4bd0acd [Data] new functional for creating data splits in graph (#5418) 
* new functional for creating data splits in graph

* minor fix in data split implementation

* apply suggestions from code review

Co-authored-by: Mufei Li <mufeili1996@gmail.com>

* refactoring + unit tests

* fix test file name

* move imports to the top

* Revert "fix test file name"

This reverts commit 126323e38c.

* remove nccl submodule

* address linter issues

---------

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
Co-authored-by: Hongzhi (Steve), Chen <chenhongzhi.nkcs@gmail.com>
 2023-03-09 18:55:25 +08:00
Guangyu Zhou
178290249e [Dataset] Add PATTERN dataset (#5422) 
* add PATTERN dataset

* fix bug

* fix bugs

* fix issues

* refine according to dongyu's comments

---------

Co-authored-by: BuptTab <gyzhou2000@gmail.com>
Co-authored-by: rudongyu <ru_dongyu@outlook.com>
 2023-03-08 14:08:12 +08:00
Tingyu Wang
bfd411d0d5 [Model] Add dgl.nn.CuGraphGATConv model (#5168) 
* add CuGraphGATConv model

* lintrunner

* update model to reflect changes in make_mfg_csr(), move max_in_degree to forward()

* simplify pytest markers

* fall back to FG option for large fanout

* update error msg

* add feat_drop and activation options

* add residual option

* Update python/dgl/nn/pytorch/conv/cugraph_gatconv.py

Co-authored-by: Mufei Li <mufeili1996@gmail.com>

* Update python/dgl/nn/pytorch/conv/cugraph_gatconv.py

Co-authored-by: Mufei Li <mufeili1996@gmail.com>

* reset res_fc

---------

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2023-03-04 14:10:06 +08:00
Mufei Li
f00cd6efbd [Utils] Edge and LINKX homophily measure (#5382) 
* Update

* lint

* lint

* r prefix

* CI

* lint

* skip TF

* Update

* edge homophily

* linkx homophily

* format

* skip TF

* fix test

* update

* lint

* lint

* review

* lint

* update

* lint

* update

* CI

---------

Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-03-03 16:58:20 +08:00
Zhiteng Li
a53ecd229b [Dataset] Add CLUSTER dataset (#5389) 
* add CLUSTER dataset

* refine according to dongyu's comments

---------

Co-authored-by: rudongyu <ru_dongyu@outlook.com>
 2023-03-01 16:36:12 +08:00
Mufei Li
fcf5ad5f49 [Utils] Node homophily measure (#5376) 
* Update

* lint

* lint

* r prefix

* CI

* lint

* skip TF

* Update

---------

Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-02-24 14:26:02 +08:00
Kunal Mukherjee
45153fc078 [Model] Implemented SubgraphX Explainer for Homogeneous graph (#5315) 
* subgraphx commit

* nits

* newline eof added

* lint fix

* test script updated to use default values

* lint fix

* graphs that are used for test cases are updated to a small graph

* lint formatted

* test paramter adj to complete the test under 20s

* lint fixes

---------

Co-authored-by: kxm180046 <kxm180046@utdallas.edu>
 2023-02-23 12:50:31 +08:00
Tingyu Wang
bcf9923b32 [Model] Add dgl.nn.CuGraphSAGEConv model (#5137) 
* add CuGraphSAGEConv model

* fix lint issues

* update model to reflect changes in make_mfg_csr(), move max_in_degree to forward()

* lintrunner

* allow reset_parameters()

* remove norm option, simplify test

* allow full graph fallback option, add example

* address comments

* address reviews

---------

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2023-02-22 13:43:28 +08:00
ZhenyuLU_Heliodore
5598503aa0 [Transform] Add SVDPE Transform Module (#5121) 
* add SVD positional encoding

* modify importing module

* Fixed certain problems

* Change the test unit to a nonsigular one

* Fixed typo and make accord with lintrunner

* added svd_pe into dgl.rst

* Modified dgl.rst
 2023-02-08 12:29:03 +08:00
Augusto Berndt
94d3c6cb9f [Doc] Fix a typo in dgl.dataloading.rst (#5211) 
changing privimitive to primitive
 2023-01-20 14:23:26 +08:00
Hongzhi (Steve), Chen
17fad103b5 update (#5215) 
Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>
 2023-01-20 11:25:53 +08:00
Hongzhi (Steve), Chen
050798e9aa Update dgl.sparse rst. (#5201) 
* dgl

* blabla

Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>
 2023-01-19 12:22:48 +08:00
czkkkkkk
b5c5c860f6 [Sparse] Refactor matmul interface. (#5162) 
* [Sparse] Refactor matmul interface.

* Update
 2023-01-13 20:08:40 +08:00
Hongzhi (Steve), Chen
9334421d2b [Sparse] Rename as_sparse to to_sparse, dense to to_dense. (#5170) 
* as_sp_to_sp

* dense

* revert_mock

* test

* revert

Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>
 2023-01-13 17:03:20 +08:00
Rhett Ying
85bd0cdeca [Doc] remove deprected Node/EdgeDataLoader (#5171) 2023-01-13 13:22:16 +08:00
Hongzhi (Steve), Chen
f1ed5d6de7 blabla (#5152) 
Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>
 2023-01-11 20:21:55 +08:00
Hongzhi (Steve), Chen
41b4180950 Polish (#5149) 
Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>
 2023-01-11 19:31:08 +08:00
Hongzhi (Steve), Chen
1a33ee99d3 [Sparse] Update doc string of element-wise ops for DiagMatrix and SparseMatrix. (#5136) 
* doc

* minor

* black

* no-lint

* reorg

Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>
 2023-01-11 12:08:24 +08:00
Hongzhi (Steve), Chen
c5119480f2 [Sparse] Remove unnecessary API exposure. (#5135) 
* remove unnecessary exposure.

* remove_add_power

* remove_warning

* reorder

Co-authored-by: Steve <ubuntu@ip-172-31-34-29.ap-northeast-1.compute.internal>
 2023-01-11 11:47:14 +08:00
peizhou001
56ffb650fe [API Deprecation]Deprecate contrib module (#5114) 2023-01-06 20:16:01 +08:00
Mufei Li
c8bc558880 [Sparse] Remove SparseMatrix.indices and add device/dtype conversions (#5108) 
* Update

* Update

* Update

* lint

* lint

* Update

* CI

* Update diag_matrix.py

* Update sparse_matrix.py

* Update sparse_matrix.py

Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
Co-authored-by: Hongzhi (Steve), Chen <chenhongzhi.nkcs@gmail.com>
 2023-01-06 17:37:13 +08:00
Mufei Li
9169fc3541 [Sparse] Polish sparse matrix creation functions (#5093) 
* update

* Update

* Update

* Update

* Update

Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2023-01-03 22:59:57 +08:00
ZhenyuLU_Heliodore
cd817a1a00 [NN] Add SpatialEncoder and SpatialEncoder3d (#4991) 
* Add SpatialEncoder and SpatialEncoder3d

* Optimize the code execution efficiency

* Fixed certain problems according to Dongyu's suggestions.

* Fix an error about probability of division by zero in PathEcoder; Change certain designs in SpatialEncoder

* Fix a typo

* polish the docstring

* fix doc

* lint

Co-authored-by: Ubuntu <ubuntu@ip-172-31-14-146.ap-northeast-1.compute.internal>
Co-authored-by: rudongyu <ru_dongyu@outlook.com>
 2023-01-03 14:02:14 +08:00
Mufei Li
37bd092587 [Sparse] Namespace migration and doc update (#5088) 
* update

* lint

* lint

* comments

Co-authored-by: Ubuntu <ubuntu@ip-172-31-36-188.ap-northeast-1.compute.internal>
 2022-12-29 20:34:29 +08:00
Zhiteng Li
279e2e8fba Add Graph Transformer Layer (Dense Computation) (#4959) 
* Add GraphTransformerLayer (dense)

* beautify the python code with black

* refine according to mufei's comments

* fix AttributeError in unit test

* rename module as GraphormerLayer

* fix name issue

Co-authored-by: Mufei Li <mufeili1996@gmail.com>
 2022-12-07 16:23:14 +08:00
Muhammed Fatih BALIN
84a12cf6a1 [Doc] Add Labor Sampler documentation (#4986) 
Co-authored-by: Xin Yao <xiny@nvidia.com>
 2022-12-07 08:42:26 +08:00