class |
AlleleCountStats |
Count singletons and other allele counts per sample
|
class |
GenotypeStats |
Calculate statistics on genotype
|
class |
HomHetStats |
Count Hom/Het per sample
From Pierre:
For multiple ALT, I suggest to count the number of REF allele
0/1 => ALT1
0/2 => ALT1
1/1 => ALT2
2/2 => ALT2
1/2 => ALT2
|
class |
TsTvStats |
Calculate Ts/Tv rations per sample (transitions vs transversions)
|
class |
VariantEffectStats |
Variants effect statistics
|
class |
VariantStats |
Variants statistics
|
class |
VariantTypeStats |
Count variant types (SNP, MNP, INS, DEL)
|
class |
VcfStats |
VCF statistics: This are usually multi-sample statistics
|