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Top Level Namespace
AminoAcid < ObjectTop Level Namespace
Codon < ObjectTop Level Namespace
DataTypesTop Level Namespace
Fasta < ObjectTop Level Namespace
- Chrom < ObjectFasta
FastaAuxTop Level Namespace
Fastq < ObjectTop Level Namespace
- Read < ObjectFastq
Flagstat < ObjectTop Level Namespace
GOTop Level Namespace
- Annotation < HashTableGO
  - AnnotationLine < HashLineGO::Annotation
- Ontology < ObjectGO
- TagSet < ObjectGO
- Term < ObjectGO
GTF < HashTableTop Level Namespace
- Feature < HashLineGTF
- Gene < ObjectGTF
- Transcript < ObjectGTF
GeneticCode < ObjectTop Level Namespace
GenomicLocusTop Level Namespace
- Position < ObjectGenomicLocus
- Region < ObjectGenomicLocus
GermConfig < ObjectTop Level Namespace
- KeyError < StandardErrorGermConfig
GermDefaultTop Level Namespace
HashTable < ObjectTop Level Namespace
- HashLine < ObjectHashTable
HashTableAuxTop Level Namespace
Indelocator < SampleTop Level Namespace
- Line < LineIndelocator
IntervalListTop Level Namespace
- IntervalIntervalList
- Set < ObjectIntervalList
- Tree < ObjectIntervalList
- TreeNode < ObjectIntervalList
Maf < CollectionTop Level Namespace
- Line < RecordMaf
MuTect < CollectionTop Level Namespace
- Line < RecordMuTect
Mutation < ObjectTop Level Namespace
- Collection < HashTableMutation
- FilteringMutation
- OncotateMutation
- Record < HashLineMutation
Oncotator < ObjectTop Level Namespace
- Transcript < ObjectOncotator
PrinterTop Level Namespace
SDRF < HashTableTop Level Namespace
Sam < ObjectTop Level Namespace
- Header < ObjectSam
  - Record < ObjectSam::Header
- Read < ObjectSam
SegFile < HashTableTop Level Namespace
- Segment < HashLineSegFile
TCGATop Level Namespace
- RsemExpression < ObjectTCGA
- Sample < ObjectTCGA
TriNuc < ObjectTop Level Namespace
VCF < CollectionTop Level Namespace
- Genotype < ObjectVCF
- Line < RecordVCF
- Preamble < ObjectVCF