Kalins Banerjee

run_numbat() gives error: running hclust...Error in vectbl_assign(x[[j]], i, recycled_value[[j]])

2

Hello, I am trying to apply numbat on a 10x visium dataset, and I encountered the an error while using run_numbat(). Can you please help me with this? Here are...

Hello Dr. Akdes, I would like to use CaSpER to a 10x scRNA-seq tumor dataset, and I know the group of normal cells. The bam file contains reads from all...

Obtain bin by cell matrices from bulk WGS+ scDNAseq

5

Hello, I have a 10x scDNAseq tumor data and a matched bulk WGS normal data. I would like to perform CNA analysis using Alleloscope. I am not sure on how...

CNV plots from combine module

2

Hello, I am looking for the plot/plots based on the combine module inside the 'plot' folder. Can you please tell the differences between *_combine_base.png and *_combine_select.png? I am not sure...

Allele specific copy numbers for 'amp' and calculation of cnv_state_post

1

Hello Dr. Gao, Can you please help me out with the following queries regarding the outputs from Numbat? 1) How can I extract the estimated allele specific copy numbers for...