strawberry098
strawberry098
In the mixscape vignette, `eccite$NT` is not present in the Seurat object metadata table. Is there a typo? # Calculate percentage of KO cells for all target gene classes. `df
I git clone with development version of pySCENIC. Upon `pip3 install .`, I get the following error: Collecting ctxcore>=0.2.0 (from pyscenic==0.12.1+7.g1cd059f) Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken...
Running the `netVisual_circle` visualization function resulted in an error: `Error in plot.window(...) : need finite 'xlim' values` Upon checking `cellchat@net$count` or `cellchat@net$weight`, all values are zeros. What could be wrong?
Given CurioSeeker Slide-seq version 2 is based on 10 um beads (almost single-cell resolution), how can I determine `spatial.factors`?
Do I need the region set and scores.feather files to run snakemake on scenicplus? According to: https://pycistopic.readthedocs.io/en/latest/faqs.html It seems like 10x multiome (ATAC) Seurat object analyzed by Signac only requires...
I'm getting an error with `plot_metadata` ```python import tkinter as tk import matplotlib i = 0 while i < 10: i += 1 try: matplotlib.use('TkAgg') break except: print(i) from pycisTopic.clust_vis...
I'm getting the following error for `run_umap`  where Cell is the column name containing cell ID values. How can I resolve this?
When running `computeCommunProb`, I'm getting this error: `Error in nn.ranked[idx.i, ] : subscript out of bounds`
I have a Seurat Object that contains multiple 10x Visium spatial transcriptomics datasets. I used `SplitObject` to split the Seurat Object by sample, but when calling `split_seuobj$sample1`, the spatial.images still...