theislab scib issues - Githubissues

theislab / scib

Benchmarking analysis of data integration tools

MIT License

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Test CCA integration with scib

#419 mairamirza opened 2 months ago
1
Graph iLISI gives a super low score for well-integrated data

#418 dariotommasini opened 2 months ago
0
Incosistent usage of adata.copy() argument in integration.py

#417 vondoRishi opened 2 months ago
0
export the benchmarking table resuls as pdf

#416 mohamednhassan opened 2 months ago
0
Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows

#415 dependabot[bot] opened 2 months ago
0
Fix lint

#414 mumichae closed 3 months ago
0
Lisi Installation Failed

#413 srupendra opened 4 months ago
1
kBET metrics does not work with scipy==1.14.0

#412 kollo97 opened 4 months ago
1
Computing Metrics on Seurat Objects

#411 VishD17 opened 4 months ago
0
M.A might not be available, you should use M.toarray()

#410 Zhongzheng99 closed 3 months ago
2
Update python-igraph dependency to igraph

#409 szhorvat closed 3 months ago
0
Optimise PC regression

#408 mumichae opened 7 months ago
1
Update codecov with token

#407 mumichae closed 7 months ago
0
Use precomputed clustering

#406 mumichae closed 7 months ago
1
Use `scib.cl.cluster_optimal_resolution` in metrics wrapper

#405 mumichae closed 7 months ago
1
Fix argument deprecation

#404 mumichae closed 8 months ago
1
support scanpy 1.10

#403 martinkim0 closed 8 months ago
2
Ensure essential packages are not detached!

#402 zhongzheng1999 closed 3 months ago
1
scib import failure with scanpy 1.10.0

#401 mmdanziger closed 8 months ago
2
scib.metrics.metrics returns all NaN

#400 Jiayi-Zheng opened 8 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 8 months ago
1
where can i download the benchmarking data ？ Please

#398 noob000007 closed 8 months ago
1
Can "Scib" evaluate the integration functionality of Seurat v5 ?

#397 zhangmiaomiao379 opened 10 months ago
0
Update dependencies

#396 mumichae closed 10 months ago
1
Refactor LISI metrics

#395 mumichae closed 7 months ago
1
Skip labels before loop

#394 johnarevalo closed 3 months ago
3
Question on Benchmarking Cell Type Assignments Post-Integration and Concerns about Bias in Results

#393 MariaRosariaNucera opened 11 months ago
2
mertric about ASW

#392 BillyChen123 opened 11 months ago
0
Questions about the weighted score design of scIB

#391 HelloWorldLTY opened 12 months ago
1
fix: check file empty

#390 chyroc closed 11 months ago
1
use_rep in cluster_optimal_resolution and opt_louvain

#389 kzkedzierska opened 1 year ago
0
AttributeError: can't set attribute 'categories'

#388 BillyChen123 opened 1 year ago
0
how to merge and integrate the TPM and raw counts matrix data

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

#386 BillyChen123 closed 8 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 1 year 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 1 year 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