Whole genome sequence analysis pipeline

0

Entering edit mode

4.2 years ago

panxingxin16 • 0

Hello, everyone.

I am new to bioinformatics. Currently, I want to analyze whole genome sequence data from GTEx bam files. But I have no idea about how to start? I googled a lot, but cannot find a tutorial for a beginner? Could you please provide any suggestions for me? Thank you in advance.

SNP next-gen sequencing • 697 views

ADD COMMENT • link 4.2 years ago by panxingxin16 • 0

1

Entering edit mode

GTEx profiled transcriptomes, not genomes. Are you aware of this fact?

ADD REPLY • link 4.2 years ago by Kevin Blighe 87k

0

Entering edit mode

Are you sure? According to Gtex p8 release, there are hundreds of WGS data.....Please correct me if I misunderstood it.

ADD REPLY • link 4.2 years ago by panxingxin16 • 0

0

Entering edit mode

No no, please correct me if I mis-understood. Can you provide a link?

If you are a beginner in this space, you should start with the GATK, but make sure that you now use > version 4 of the GATK.

ADD REPLY • link 4.2 years ago by Kevin Blighe 87k

0

Entering edit mode

https://gtexportal.org/home/datasets

ADD REPLY • link 4.1 years ago by panxingxin16 • 0

Login before adding your answer.