Comments (1)
i used Seurat's default CLR normalization
https://satijalab.org/seurat/v3.0/multimodal_vignette.html
let me know if that helps
from mpal-single-cell-2019.
Related Issues (20)
- optimizeLSI for scRNA-seq gives Error in if (n < 0L) max(length(x) + n, 0L) else min(n, length(x)) :
- Code for creating differentiual_Summary objects is missing HOT 1
- Where is the genes.gtf file HOT 1
- sparseMatTTest function is not defined in the scATAC_05_Cluster_Disease_w_Reference_v1.R ? HOT 1
- Where is the bam file for scATAC-seq data? HOT 6
- How did you compose those pretty scentific figures ? HOT 4
- 'keepFilteredChromosomes' function seems invalid HOT 2
- Runtime of getting UMAP reductions HOT 4
- LASSO penalty issue in customized gene activity score calculation
- About the reference genome used in scRNA
- nn_index in scRNA-Projection-UMAP.zip is empty or not compatible with uwot 0.1.8 and RcppAnnoy 0.0.16
- Error in lsiProjection
- Cannot find the definition of the function "keepFilteredChromosomes"
- Antibody features in raw 10x Bam Files provided in the repository link
- Label transfer from RNA to ATAC
- scRNA cell type annotation marker HOT 1
- Cell barcode IDs for processed ATAC SummarizedExperiment objects
- is there a way to combine different 10x results ie different fragment.tsv.gz? thanks! HOT 2
- error in 02.R... HOT 3
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