Samtools pileup indel ploidy

[nilshomer]

Is there a convention to distinguish between heterozygous indels and homozygous indels in samtools' pileup? I have been running under the assumption that they look like I describe below, but looking at the indel frequency conditioned on the call on some simulated data there seems to be a fair number of heterozygotes that should have been called homozygous. Maybe pileup does not distinguish between het/hom in indels?

HET

chr22    49513623    *    */-G    352    352    45    30    *    -G    18    12    0    0    0

HET

chr22    49515653    *    -G/*    121    721    49    27    -G    *    20    7    0    0    0

HOM

chr22    49531477    *    +G/+G    42    919    45    28    +G    *    23    5    0    0    0

UNKNOWN (Multiple alleles)

chr22    34169351    *    +CC/+C    6    290    42    12    +CC    +C    8    1    3    3    0

[bardou]

Hi all,

I'm also interesting by this one...
Nobody can help ?

Thanks