Question: genome music bmr cal-covg
0
gravatar for qwertyuiop201320142015
2.6 years ago by

hello,

        there is a question in my mind.i have the MAFv2.3 files and roi file ,but i do not know  how to generate the bam-list files which include tumour bam and normal bam.

       any help will be appreciate! thank you.

 

 

ADD COMMENTlink modified 2.4 years ago by michael.d.mclellan120 • written 2.6 years ago by qwertyuiop2013201420150
0
gravatar for Pascal
2.6 years ago by
Pascal250
European Union
Pascal250 wrote:

Not quite sure, but I think only the tumor bam is required. Format is 

ID<TAB>Another ID<TAB>path/to/Tumor.bam

ADD COMMENTlink written 2.6 years ago by Pascal250
0
gravatar for michael.d.mclellan
2.4 years ago by
United States
michael.d.mclellan120 wrote:

Check out http://gmt.genome.wustl.edu/packages/genome-music/genome-music-bmr-calc-covg.html

 

--bam-list

Provide a file containing sample names and normal/tumor BAM locations for each. Use the tab- delimited format [sample_name normal_bam tumor_bam] per line. Additional columns like clinical data are allowed, but ignored. The sample_name must be the same as the tumor sample names used in the MAF file (16th column, with the header Tumor_Sample_Barcode).

ADD COMMENTlink written 2.4 years ago by michael.d.mclellan120
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