Sakura

Empty file output from pyscenic ctx using original/modified databases

11

Hi pySCENIC team, Thank you for providing a great tool. I am running pyscenic using my original zebrafish data. However, I got an empty file output (reg.csv) from `pyscenic ctx`,...

Hi team, Thank you for providing a great tool. Could you please explain more details of how to generate a zebrafish motif annotation database (Motif2TF format)? Or even it would...

Error in picking out modules for iRegulon: print( f'{tf} regulon: {len(regulons[tf])} genes' ) KeyError: 'TF name'

1

Hi, Thank you very much for the wonderful tool. I would like to create module lists for iRegulon analysis. However, I'm getting an error message during the module pick-up step....

Hello! Thank you so much for developing a great tool! I am finalizing my analysis and want to annotate another piece of information on the velocity plot using `show.velocity.on.embedding.cor`. Would...

getDAregion error: data are essentially constant

1

Hi DAseq team, Thank you for providing a nice tool. I am having an error message and several warnings when running `getDAregion`. The error is probably related to the statistical...

Create a zebrafish db: question about the best fasta file

18

Hi team, Thank you for the nice explanation about database building. I want to create a database for zebrafish using "create_cistarget_motif_databases.py". I am struggling to get a zebrafish genome region...