MuSiC

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music_prop.cluster:Error in if (sum(abs(p.weight.new - p.weight)) < eps) { : missing value where TRUE/FALSE needed

11

Hi Xuran, Thank you for writing this package! I was trying to run the Tutorial of MuSiC, when I run the music_prop.cluster function, I get the following error: Est.mouse.bulk =...

Jason-bot-stack

Handle Huge Sparse Matrices

6

Hi @xuranw, The expression matrix of my reference scRNAseq dataset is huge (27804 genes x 118535 cells) and is readable on R as a [dgCMatrix object](https://www.rdocumentation.org/packages/Matrix/versions/1.3-4/topics/dgCMatrix-class). Unfortunately, the ExpressionSet function...

julvi

Error in nnls(D.weight, Y.weight) :

3

Hi, When i use the function of music_prop.cluster(),i get the error: > Est.pbmc.bulk = music_prop.cluster(bulk.eset = bulk.eset, sc.eset = SC.eset, clusters = 'celltype', group.markers = Ipmarkers,groups = 'clusterType', samples =...

woshiyangsi

Extract weights for each gene

1

Is there a way to extract a single weight for each gene as a vector? When looking at $Weight.gene, it appears to be an expression matrix that has "weights" for...

v1nperez

Hello, I am getting the following error with `music_prop.cluster`: ` Error in if (length(S) != ncol(D)) { : argument is of length zero ` I ran the function code line...

sarahbonnin

Problems with bulk_construct

1

Hello, I am using the code given in the tutorial to calculate real proportions of cells but I am getting an error. First I create an ExpressionSet from a Seurat...

bieniu777

Missing cell types in music_prop() output

1

Hello, Thank you for developing this package. I am following the vignette and running into an issue with missing cell types in the output of the music_prop() function. I only...

aditisk

perform anova on deconvoluted single cell output

2

Dear music developers, I got deconvoluted output from MuSic R library. I am interested in performing differential gene expression of the deconvoluted result. I have following outputs upon deconvolution: Est.prop.weighted,...

complexgenome

Gene importance for defining cell types

1

@xuranw thanks for the excellent work on MuSiC. May I ask, how to extract "importance of genes" for defining different cell types?

tuhulab

Error: music_prop(): Too few common genes

7

Hi all and @xuranw, I was trying to use music_prop() function to find out estimated cell type proportion, however, it raises an "too few common genes" error. I know that...

hasanalanya