quadbio / Pando

Multiome GRN inference.

https://quadbio.github.io/Pando/

quadbio/Pando Issues

Extract significant modules
Closed a month ago1
model overfitting
Updated 3 months ago
regions parameter in initate_grn()
Updated 3 months ago4
Pando output - enhancer regions
Updated 3 months ago
Error:infer_grn(),
Updated 3 months ago4
input data normalisation
Updated 3 months ago7
Question: where to find tutorial seurat object dataset
Closed 3 months ago1
Advice about a dataset with conditions
Updated 4 months ago4
Error in find_motifs with invalid version slot in SeuratPlus object
Updated 4 months ago5
Error in infer_grn()
Updated 4 months ago5
a subgraph of the GRN specifying only one "target gene"
Closed 4 months ago1
Question on grn output: how to interpret the grn output where there are list of TFs and their target genes?
Updated 4 months ago1
Error in as_igraph_vs(graph, from) : Invalid vertex names while running plot_tf_network
Updated 4 months ago1
Questions on integration and interpretation
Closed 4 months ago3
plot_network_graph() only plot target genes
Updated 4 months ago1
Question: celltype-specific GRN
Closed 9 months ago2
Error with "method for 'DefaultAssay<-' applied to an object of class "GRNData"
Closed 5 months ago5
issue in initiate_grn- invalid class "Seurat" object: 'assays' must be a named list
Closed 5 months ago4
initiate_grn error
Closed a year ago3
Pando Not Returning Expected GRNs and Limiting Target Genes to a Handful - Possibility of Problem with Mouse Genome?
Updated 6 months ago24
Error with findOverlaps function while initiating grn
Updated 8 months ago
infer_grn errors
Updated 8 months ago
Run pando on dataset with different conditions
Closed 9 months ago1
Where is the Sample Data from Vignettes?
Closed 9 months ago1
`coef()` results was changed
Closed 9 months ago2
error in initiate_grn()
Closed a year ago2
running time of Pando
Closed a year ago1
Error in as.igraph.vs(graph, from) : Invalid vertex names
Updated a year ago2
Infer_grn Function Returning Error
Closed a year ago21
ERROR in GRN inference
Updated a year ago2
where to download the tutorial data
Closed a year ago
scRNA data only
Closed a year ago1
Question on custom motif sets
Closed a year ago2
Question: Can Pando be used on an unpaired multiomic dataset?
Closed a year ago1
infer_grn() parallelization cores not delivering results
Closed a year ago1
Question: feature selection for network plots, UMAP embedding
Closed a year ago1
normalization
Closed a year ago
I need your help
Closed a year ago3
Question: How to customize GRN plot with metadata
Closed a year ago1
phastCons for Mus musculus
Closed 2 years ago3
Direction of regulation / highlighting TFs in the network plot
Closed 2 years ago2
Error with plot_tf_network
Closed 2 years ago1
Module activity between branches (and over pseudotime)
Closed 2 years ago6
Error "attempt to select less than one element in integerOneIndex"
Closed 2 years ago13
"not-yet-implemented 'Matrix[<-' method"
Closed 2 years ago3
The model for repressor
Closed 2 years ago1
get_network_graph() issue
Closed 2 years ago4
Installation failure due to Matrix.utils dependency
Closed 2 years ago4
plot_module_metrics(muo_data)
Closed 2 years ago1
Test data/ vignette data accessibility
Closed 2 years ago1