theislab scib issues - Githubissues

theislab / scib

Benchmarking analysis of data integration tools

MIT License

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Computing Metrics on Seurat Objects

#411 VishD17 opened 1 day ago
0
M.A might not be available, you should use M.toarray()

#410 Zhongzheng99 opened 5 days ago
0
Update python-igraph dependency to igraph

#409 szhorvat opened 1 month ago
0
Optimise PC regression

#408 mumichae opened 2 months ago
1
Update codecov with token

#407 mumichae closed 2 months ago
0
Use precomputed clustering

#406 mumichae closed 2 months ago
1
Use `scib.cl.cluster_optimal_resolution` in metrics wrapper

#405 mumichae closed 2 months ago
1
Fix argument deprecation

#404 mumichae closed 3 months ago
1
support scanpy 1.10

#403 martinkim0 closed 3 months ago
2
Ensure essential packages are not detached!

#402 zhongzheng1999 opened 3 months ago
0
scib import failure with scanpy 1.10.0

#401 mmdanziger closed 3 months ago
2
scib.metrics.metrics returns all NaN

#400 Jiayi-Zheng opened 3 months ago
0
why the "Unable to allocate 121. GiB for an array with shape (26734, 606219) and data type float64 every time I run "scib.integration.combat(adata, batch= "sample")"

#399 NicoNiCoN11 closed 3 months ago
1
where can i download the benchmarking data ？ Please

#398 Xyihang closed 3 months ago
1
Can "Scib" evaluate the integration functionality of Seurat v5 ?

#397 zhangmiaomiao379 opened 5 months ago
0
Update dependencies

#396 mumichae closed 6 months ago
1
Refactor LISI metrics

#395 mumichae closed 2 months ago
1
Skip labels before loop

#394 johnarevalo opened 6 months ago
0
Question on Benchmarking Cell Type Assignments Post-Integration and Concerns about Bias in Results

#393 MariaRosariaNucera opened 6 months ago
2
mertric about ASW

#392 BillyChen123 opened 7 months ago
0
Questions about the weighted score design of scIB

#391 HelloWorldLTY opened 7 months ago
1
fix: check file empty

#390 chyroc closed 6 months ago
1
use_rep in cluster_optimal_resolution and opt_louvain

#389 kzkedzierska opened 8 months ago
0
AttributeError: can't set attribute 'categories'

#388 BillyChen123 opened 8 months ago
0
how to merge and integrate the TPM and raw counts matrix data

#387 Teich2233 opened 10 months ago
1
No such file or directory: '/tmp/lisi_gtjq4lmu/graph_lisi_indices_0.txt'

#386 BillyChen123 closed 3 months ago
2
Running scib.metrics.metrics() produces dataframe of NaNs

#385 EvanDMee opened 1 year ago
1
Comparing metrics from different embeddings

#384 samfenske opened 1 year ago
0
Possibility to report the cLISI score for each cluster?

#383 auesro opened 1 year ago
0
scanorama does not subset to HVG list

#382 mbuttner opened 1 year ago
1
provide number of columns to `pd.read_table`

#381 johnarevalo closed 1 year ago
1
Set names when reading LISI CSV files

#380 lazappi closed 11 months ago
1
Metrics fail when there are unused labels

#379 lazappi opened 1 year ago
1
Question on publicly available reprocessed datasets

#378 kostaslazaros closed 1 year ago
1
more readable PCA computation and info retrieval

#377 mumichae closed 1 year ago
1
Error reading LISI index file

#376 lazappi closed 1 year ago
2
FileNotFoundError when running ilisi metric

#375 katelynxli closed 1 year ago
3
Error runing LISI when reading index file

#374 HelloWorldLTY closed 11 months ago
5
Update documentation clustering

#373 mumichae closed 1 year ago
1
Add GPU_id param for DESC

#372 johnarevalo closed 1 year ago
1
Scale isolated label ASW

#371 mumichae closed 1 year ago
2
Run iso label as discussed on friday

#370 danielStrobl closed 1 year ago
1
Update test_isolated_label.py

#369 danielStrobl closed 1 year ago
2
Update isolated_labels.py

#368 danielStrobl closed 1 year ago
5
isolated label scores do not return expected results

#367 danielStrobl closed 1 year ago
1
`cluster_optimal_resolution()` assumes argument order which can be incorrect for asymmetric metrics

#366 lazappi closed 1 year ago
1
Missing documentation for `cluster_optimal_resolution()`

#365 lazappi closed 1 year ago
0
Fix PCA regression error for sparse matrices

#364 mumichae closed 1 year ago
1
Update integration methods

#363 mumichae opened 1 year ago
0
Add perfect isolabel ASW test

#362 mumichae closed 1 year ago
3