jianhuupenn SpaGCN issues

jianhuupenn / SpaGCN

SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network

MIT License

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issues

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No spatial domain detected

#88 sang-15 closed 4 months ago
4
SpaGCN not compatible with Visium HD data (single-cell resolution of ST data) - Memory Error

#87 Rafael-Silva-Oliveira closed 4 months ago
1
SpaGCN's compatibility with mclust

#86 rocketeer1998 opened 5 months ago
0
How to run SpaGCN with histology as .png instead of .tif

#85 uthsavc closed 11 months ago
0
Questions about the pancreatic cancer dataset

#84 czwdcm opened 1 year ago
0
may be wrong code while calculating the student t distribution

#83 Chengwei-Yan opened 1 year ago
0
module 'SpaGCN' has no attribute 'calculate_adj_matrix'

#82 JavadP4 opened 1 year ago
1
Update calculate_adj.py

#81 ch1ru opened 1 year ago
0
Performance without histology better than with histology

#80 ethanweinberger opened 1 year ago
1
Please refer to igraph instead of python-igraph

#79 szhorvat opened 1 year ago
0
BaseException: Could not construct partition: vector too long

#78 lvmt closed 1 year ago
0
Can't reproduce my results

#77 yunbokai opened 1 year ago
3
About modify coordinates

#76 makabakayu opened 1 year ago
0
About the extended application of SpaGCN

#75 makabakayu closed 1 year ago
1
Add GPU support

#74 AyanoClarke opened 1 year ago
0
Variable names are not unique.

#73 Listen-lei opened 1 year ago
1
Error: Unable to allocate 932. GiB for an array with shape (353762, 353762)

#72 bmill3r opened 1 year ago
0
[Master_project] SpaGCN script

#71 aleksa1902 opened 1 year ago
0
Update util.py

#70 zEpoch opened 1 year ago
0
Inconsistent results in SVGs identification compared to tutorial.ipynb

#69 aleksa1902 opened 1 year ago
0
The second part of the project

#68 aleksa1902 closed 1 year ago
1
Computation of q_ij

#67 psl-schaefer opened 1 year ago
0
Update setup.py

#66 zEpoch closed 1 year ago
0
problem reproducing turtorial

#65 watergua opened 1 year ago
2
High memory demands with large samples

#64 vladimirkovacevic opened 1 year ago
0
Replace sklearn with scikit-learn dependency

#63 Zethson closed 1 year ago
4
Example data not available

#62 vladimirkovacevic closed 1 year ago
2
How to choose radius for neighbouring domains?

#61 vladimirkovacevic closed 11 months ago
4
Is it possible to run SpaGCN without histology image?

#60 vladimirkovacevic closed 1 year ago
1
Update the virtual env python version

#59 messcode opened 1 year ago
0
spatial location file

#58 YyLu5 closed 6 months ago
2
Request for the step to be followed for the multiple samples integration, normalization and clustering in SpaGCN

#57 archanabhardwaj opened 1 year ago
0
The SLIDE-seq V2 data

#56 uuup111 opened 1 year ago
0
location file loss in old ST

#55 xiao-kong-long closed 1 year ago
1
Batch effect issue for multiple 10X visium samples

#54 archanabhardwaj opened 2 years ago
1
AssertionError

#53 yuchen345 opened 2 years ago
1
About the rank_genes_groups function in utils.py

#52 LindsayMo closed 2 years ago
1
how to use detect_spatial_domains_ez_mode without histology image

#51 linpei26 closed 2 years ago
2
Error running res=spg.search_res : Could not construct partition

#50 xxh-Jane closed 2 years ago
0
Adjacency matrix of DLPFC 151673

#49 xiao-kong-long opened 2 years ago
3
NotADirectoryError

#48 xiao-kong-long closed 2 years ago
2
Error running spaGCN : Could not construct partition

#47 archanabhardwaj closed 2 years ago
3
when histlogy image is not available, SpaGCN calculating the adjacent matrix showed "segmentation fault""

#46 20182531027 closed 1 year ago
1
Reproduction issue on tutorial: error at the steps with louvain algorithm

#45 huimin230 closed 11 months ago
2
Session crash on google colab

#44 shashkat closed 1 year ago
1
Error at the steps with louvain algorithm

#43 avsarg closed 2 years ago
3
How could I get the ground truth of GSE111672?

#42 amssljc closed 2 years ago
2
Student's t bug report

#41 tomo61098 closed 2 years ago
1
target_cluster, x/y_pixel and nbr_domians in Identify SVGs section

#40 lifan18 closed 11 months ago
2
How to use functions Moran_I and Geary_C ？

#39 QingJun3 closed 2 years ago
1