# Uses of Package
org.snpeff.stats

Packages that use org.snpeff.stats
Package
Description
org.snpeff.coverage
org.snpeff.interval
org.snpeff.nextProt
org.snpeff.snpEffect.commandLine
org.snpeff.stats
org.snpeff.stats.plot

Classes in org.snpeff.stats used by org.snpeff.coverage
Class
Description
CountByKey
Counters indexed by key.
CountByType
Counters indexed by 'type' (type is a generic string that can mean anything)
CoverageByType
Classes in org.snpeff.stats used by org.snpeff.interval
Class
Description
CountByType
Counters indexed by 'type' (type is a generic string that can mean anything)
Classes in org.snpeff.stats used by org.snpeff.nextProt
Class
Description
CountByType
Counters indexed by 'type' (type is a generic string that can mean anything)
Classes in org.snpeff.stats used by org.snpeff.snpEffect.commandLine
Class
Description
VariantEffectStats
Variants annotation statistics.
VariantStats
Variants statistics: These are statisticas at Variant level.
Classes in org.snpeff.stats used by org.snpeff.stats
Class
Description
ChrPosStats
How many changes per position do we have in a chromosome.
CountByType
Counters indexed by 'type' (type is a generic string that can mean anything)
GeneCountByTypeTable
Count for each 'type' and 'gene'.
GenotypeStats
Calculate statistics on genotype
IntStats
A simple class that does some basic statistics on integer numbers
MineMarkerIntervals
Mine marker intervals: I.e.
ObservedOverExpected
Observed over expected values (o/e) ratios E.g.: CpG dinucleotides in a sequence
SamplingStats
Perform stats by analyzing some samples
TsTvStats
Calculate Ts/Tv rations per sample (transitions vs transversions)
Classes in org.snpeff.stats used by org.snpeff.stats.plot
Class
Description
CoverageByType