James Sacco

Batch CRISPRessoPooled

1

I really appreciate the Batch function, but I would like to have a feature for multiple (batch) of CRISPRessoPooled samples. I have to currently make a custom script to make...

Error in find_motifs with invalid version slot in SeuratPlus object

5

Hi, I am using Seurat version '4.3.0' and SeuratObject '5.0.1' to run Pando, but I get an error when I run find_motifs: ``` Error in validObject(.Object) : invalid class "SeuratPlus"...

Inferelator workflow for subsetted Seurat .h5ad file

1

I have a workflow question. Here is some background: I have a Seurat RDS file of integrated ATAC-seq and RNA-seq data from human samples. This data measures TF expression. After...

Attribute error in InferelatorRegressWorkflow when calling cv wrap

1

I am trying to run Inferelator on a h5ad file, but I get the following error when trying to run the cv wrap function. The h5ad file originates from a...

10X multiome

2

Hello, I am interested in the application of this tool to 10X multiome data. I have the following output files from CellRanger: atac_fragments.tsv.gz atac_fragments.tsv.gz.tbi filtered_feature_bc_matrix.h5 per_barcode_metrics.csv summary.csv web_summary.html How could...