Open A-legac45 opened 1 day ago
Hi @A-legac45! Thanks for using ArchR! Lately, it has been very challenging for me to keep up with maintenance of this package and all of my other responsibilities as a PI. I have not been responding to issue posts and I have not been pushing updates to the software. We are actively searching to hire a computational biologist to continue to develop and maintain ArchR and related tools. If you know someone who might be a good fit, please let us know! In the meantime, your issue will likely go without a reply. Most issues with ArchR right not relate to compatibility. Try reverting to R 4.1 and Bioconductor 3.15. Newer versions of Seurat and Matrix also are causing issues. Sorry for not being able to provide active support for this package at this time.
Hi, @rcorces @jeffmgranja @jgranja24 @keyuxi
I would llke to copy my entire ARCHR project cluster, embedding, umap ... into a seurat object but I do not succed to copy embeddings
I try many things but without success :
such as
code
Extraire toutes les matrices disponibles
all_matrices <- lapply(matrices, function(mat) { getMatrixFromProject(project_Peaks_RES0.9_subcluster, useMatrix = mat, binarize = TRUE) })
Nommer les matrices extraites pour identification
names(all_matrices) <- matrices
Extraire tous les embeddings disponibles
embeddings <- c("UMAP_ATAC", "UMAP_RNA") # Ajouter d'autres embeddings si disponibles all_embeddings <- lapply(embeddings, function(emb) { getEmbedding(project_Peaks_RES0.9_subcluster, embedding = emb) })
TEST POUR UNE MATRIX
geneScoreMatrixtest <- assay(geneScoreMatrix)