Transcriptional burst kinetics inference and analysis described in the article "Genomic encoding of transcriptional burst kinetics" (Larsson et. al 2019).
Hello,
I need to analyse a new set of data with the same objective as yours and in order to setup the pipeline I re-analyzed your data from the fastq files. My allele specific UMI counts matrix is much higher (about 10 times) than yours. If I understand correctly I have to multiply the per-gene per-cell UMI matrix times the fraction of reads supporting the corresponding allele (this I'm generating by computing the fraction of alternative allele in each informative SNP and averaging for all SNPs in the gene).
Do you have any idea why I'm getting such high values? Could you share your original UMI counts matrix and allele fraction matrix?
Hello, I need to analyse a new set of data with the same objective as yours and in order to setup the pipeline I re-analyzed your data from the fastq files. My allele specific UMI counts matrix is much higher (about 10 times) than yours. If I understand correctly I have to multiply the per-gene per-cell UMI matrix times the fraction of reads supporting the corresponding allele (this I'm generating by computing the fraction of alternative allele in each informative SNP and averaging for all SNPs in the gene). Do you have any idea why I'm getting such high values? Could you share your original UMI counts matrix and allele fraction matrix?
Thanks a lot!