Dear all,
I'm trying BAM2MPG software to analyze the goodness of my variant call.
But I can't understand the output when i run
> bam2mpg hg19.fasta sample.bam
This is the output:
MPG_SNV chr1 824017 g AA 0 1 1
MPG_SNV chr1 835499 A GG 0 1 1
MPG_SNV chr1 846489 T CC 0 1 1
MPG_SNV chr1 852758 G CC 0 1 1
MPG_SNV chr1 862093 T CC 0 1 1
MPG_SNV chr1 862124 A GG 0 1 1
MPG_SNV chr1 862383 C TT 0 1 1
MPG_SNV chr1 862389 A GG 0 1 1
MPG_SNV chr1 865219 G AA 0 1 1
MPG_SNV chr1 869303 C TT 0 1 1
MPG_SNV chr1 869323 T CC 0 1 1
MPG_SNV chr1 869369 G TT 0 1 1
MPG_SNV chr1 869373 G CC 0 1 1
MPG_SNV chr1 869401 G CC 0 1 1
MPG_SNV chr1 879563 A GG 0 1 1
MPG_SNV chr1 895706 G AA 0 1 1
Anyone could explain me what are the values in last three columns?
Thankx a lot
ME
I'm trying BAM2MPG software to analyze the goodness of my variant call.
But I can't understand the output when i run
> bam2mpg hg19.fasta sample.bam
This is the output:
MPG_SNV chr1 824017 g AA 0 1 1
MPG_SNV chr1 835499 A GG 0 1 1
MPG_SNV chr1 846489 T CC 0 1 1
MPG_SNV chr1 852758 G CC 0 1 1
MPG_SNV chr1 862093 T CC 0 1 1
MPG_SNV chr1 862124 A GG 0 1 1
MPG_SNV chr1 862383 C TT 0 1 1
MPG_SNV chr1 862389 A GG 0 1 1
MPG_SNV chr1 865219 G AA 0 1 1
MPG_SNV chr1 869303 C TT 0 1 1
MPG_SNV chr1 869323 T CC 0 1 1
MPG_SNV chr1 869369 G TT 0 1 1
MPG_SNV chr1 869373 G CC 0 1 1
MPG_SNV chr1 869401 G CC 0 1 1
MPG_SNV chr1 879563 A GG 0 1 1
MPG_SNV chr1 895706 G AA 0 1 1
Anyone could explain me what are the values in last three columns?
Thankx a lot
ME
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