[BUG]Expression matrix should be provided in the loom file format/The loom doesn't contain regulon information

[HaixJiang]

Describe the bug

pySCENIC
pyscenic aucell 
pyscenic.cli.pyscenic - ERROR - Expression matrix should be provided in the loom file format.
R-SCENIC
regulons_incidMat <- get_regulons(sce_SCENIC, column.attr.name="Regulons")
The attribute 'Regulons' is not available in this loom file. The loom doesn't contain regulon information

I encountered the two bugs mentioned above, and I was able to resolve them by downgrading the software version. I'll provide the version numbers of the two software packages below, which may offer some solutions for future users and also provide the authors with some inspiration for updates.

-pySCENIC==0.12.1
-loompy==3.0.1
-pandas==1.5.3

[FourAlarmFire]

I just encountered too with the same code and same error. do you resolve this problem? thanks

[HenryJinZH]

I just encountered with the same code and same error too!!! do you resolve this problem? thanks a lot

[FourAlarmFire]

NO，I did not. I still could not resolve it.

---- Replied Message ---- | From | @.> | | Date | 03/30/2024 00:02 | | To | @.> | | Cc | @.>@.> | | Subject | Re: [aertslab/pySCENIC] [BUG]Expression matrix should be provided in the loom file format/The loom doesn't contain regulon information (Issue #527) |

I just encountered with the same code and same error too!!! do you resolve this problem? thanks a lot

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[chenhy-lab]

too

[rhlgyb]

same here

[wangtanzhang612]

I just encountered with the same code and same error too!!! do you resolve this problem? thanks

[HaixJiang]

I was able to resolve them by downgrading the software @wangtanzhang612

[RickyMaGZ]

which version did you downgrade pyscenic to? I've encountered the same issue. thanks @HaixJiang