AnjaliS1

Results 9 comments of AnjaliS1

setup.py file not found

Ah I see. Sorry I thought it had run. Turns out that once I re-ran pip install -r requirements.txt, I then ran into the next error, which is why the...

[BUG]from pyscenic.rnkdb import FeatherRankingDatabase as RankingDatabase

Where is the updated tutorial for pyscenic? I have also run into the same error whilst using pySCENIC - Full pipeline.ipynb notebook

Error: colours encodes as numbers must be positive

Yes of course! This is the entirety of my code up until the plot: # single-cell analysis package library(Seurat) # plotting and data science packages library(tidyverse) library(cowplot) library(patchwork) # co-expression...

Error : runSCENIC_3_scoreCells

I have also just came across the same issue.

ImportError: cannot import name 'plot_scatter' from 'scanpy.plotting._tools.scatterplots'

Hi i have install scanpy 1.4.4.post1, butt now have the error ModuleNotFoundError: No module named 'scanpy.plotting'.

Which version of ConnectivityMap can be accessed?

Hi Ian, Ah I see, thank you for the information. I found the package really good to use and was hoping to access ConnectivityMap through R rather than the web...

Dockerfile does not build

Ran into same issue

Scenic installation

Hi I ran into the same issue. Trying out the small fix suggested.

Issue with the "Intersection of gene_names and tf_names is empty" while running the grnboost2 step of pySCENIC in hpc

I have the exact same issue. I am using a tsv file format. The expression matrix is gene x cell. I have also tried the transpose of the matrix. I...