CONICS
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diazlab
CONICS: COpy-Number analysis In single-Cell RNA-Sequencing
Thanks for always providing us with useful tools. I am doing a tutorial on the glioblastoma demo data on your page. I get an error at getGenePosition. Here is my...
Hello, I am working through the SmartSeq2 scRNA seq of Oligodendroglioma tutorial for CONICSMat and running into an issue with this part: vg=detectVarGenes(suva_expr,500) ts=calculateTsne(suva_expr,vg) plotTsneGene(ts,suva_expr,c("MBP","CSF1R","ALDOC","OLIG1")) It appears that detectVarGenes calls...
Hello, Thank you for your software. When I used the plotHistogram function to identify tumor cells for scATAC-seq data, I found that only a small part of cells was identified...
--Hi, 2 questions: is CONICS able to detect CNV in germlines single cells ? and is there a way to compute mosaicism rate ? thank you --
Hello，the location information may be wrong when I used the getGenePositions parameter to obtain the chromosomal positions of genes in the expression matrix, see as follow。 > library(beanplot) > library(mixtools)...
Hi, Thanks for your software. I want to use CONICSmat to classify tumor and nontumor cells in a 10X dataset. AND I come across two probelms. 1. Compared to tumor...
Hello, thank you for developing this package. I would like to use CONICS in my project but I was faced with the question Can CONICS be used on data generated...
Hi, I was wondering where can I download similar file for mouse genome. `chromosome_arm_positions_grch38.txt` Thanks
Hi I am trying to run conicsmat and everytime I get an error at filterMatrix() My code is `gene_pos=getGenePositions(rownames(log2mat)) log2mat1=filterMatrix(log2mat,gene_pos[,"hgnc_symbol"],minCells=5)` ``` Error in UseMethod("filter_") : no applicable method for 'filter_'...
