Hi all,
Thanks for your fabulous work!!
I try to use your pipeline to estimate TMB from my RNA-seq data. Basically, I have made a new mouse model and shown some interesting features, I want to use the bulk tumor RNA-seq of my mouse model and compare the sequences of the transcripts to reference C57BL/6 mouse DNA.
My bam file of the mouse model is from STAR. "005C_S1_Aligned.sortedByCoord.out.bam"
However, my DNA bam file is hard to generate since it is the common reference file people use. Could you please instruct me on how to generate the DNA bam file given my circumstance?
Besides, my sample is also a tumor sample, but is from a mouse not human. If I try your discriminant model for my data, do you think it makes sense?
Thank you in advance!!!
Hi all,
Thanks for your fabulous work!!
I try to use your pipeline to estimate TMB from my RNA-seq data. Basically, I have made a new mouse model and shown some interesting features, I want to use the bulk tumor RNA-seq of my mouse model and compare the sequences of the transcripts to reference C57BL/6 mouse DNA.
My bam file of the mouse model is from STAR. "005C_S1_Aligned.sortedByCoord.out.bam"
However, my DNA bam file is hard to generate since it is the common reference file people use. Could you please instruct me on how to generate the DNA bam file given my circumstance?
Besides, my sample is also a tumor sample, but is from a mouse not human. If I try your discriminant model for my data, do you think it makes sense?
Thank you in advance!!!