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LibStatGen: BAM

39 bytes removed, 10:55, 2 February 2017
BAM/SAM Classes
| Class used for storing the header. Allows access for getting and setting header values when both reading & writing SAM/BAM files.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamHeaderRecord.html SamHeaderRecord]</code>
| Class used for storing the tag/value pairs within a given header line.
|-
| Class used for storing a SAM/BAM Record. Allows access for getting and setting record values when both reading & writing SAM/BAM files.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamStatus.html SamStatus]</code>
| Status value used by the BAM classes for returning the status of the operations.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamValidator.html SamValidator]</code>
| Validates a SAM/BAM Record.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamValidationError.html SamValidationError]</code>
| Validation Error Information for a SamRecord.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamValidationErrors.html SamValidationErrors]</code>
| Container for ValidationErrors.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classPileup.html Pileup]</code>
| Template for doing pileups.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classPileupElement.html PileupElement]</code>
| Base class that can be used for the elements stored in a Pileup.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classErrorHandler.html ErrorHandler]</code>
| Class for handling errors based on the error handling type.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classPosList.html PosList]</code>
| Store refID/position, but does not store values < 0.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamFilter.html SamFilter]</code>
| Class for filtering a SAM/BAM record.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamFlag.html SamFlag]</code>
| Class for getting information from a SAM/BAM flag.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamReferenceInfo.html SamReferenceInfo]</code>
| Class for tracking the reference information mapping between the reference ids and the reference names.
|-
| <code>[http://wwwcsg.sph.umich.edu/csg/mktrost/doxygen/current/classSamTags.html SamTags]</code>
| Class for parsing/creating/operating on SAM/BAM record tags.
|}
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