SCEVAN
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AntonioDeFalco
R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of mali...
Thank you for the great tool you have provided us! I am analyzing a cluster of epithelial annotated cells sampled from a tumor, but for some reason the pipelineCNA stops....
Can the _CNAmtx.RData_ (I have these from previous analysis outputs) be used to regenerate the CNV heatmap and if so, is it possible to merge hundreds of samples together, something...
Hi! Just wanted to see if the read counts have to be normalized to account for sequencing depth, or if unnormalized counts are used as input. Thank you!
Hello Antonio, Thank you for SCEVAN which works fine for me, however, I have a question on how exactly to provide the norm_cell argument. I assumed I needed a string...
Greetings and thanks for this amazing package! I have been running SCEVAN v1.0.1 on a number of snRNA samples, and after proceeding through the first 7 without issue I received...
After running the SCEVAN analysis, the raw count matrix that was outputted was filled with both positive and negative decimal values, but what does a decimal copy number mean? Most...
Hello, I was wondering how you could find the CN of an individual cell, as it was clearly calculated in the heatmap, so where can I access the data used...
Hi Thanks for creating this fancy tool. I wonder if we can save the figures in pdf format? The font on some figures are small. I wanted to make changes...
Dear developer, Thank you for your kind words and appreciation for this powerful tool. In my research, I primarily utilize multiple 10x scRNA-seq data. However, there are two of my...
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R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of mali...