# pbalign package

## Subpackages

- pbalign.alignservice package
  - Submodules
  - pbalign.alignservice.align module
  - pbalign.alignservice.blasr module
  - pbalign.alignservice.bowtie module
  - pbalign.alignservice.fastabasedalign module
  - pbalign.alignservice.gmap module
  - Module contents
- pbalign.tasks package
  - Submodules
  - pbalign.tasks.consolidate_alignments module
  - Module contents
- pbalign.tools package
  - Submodules
  - pbalign.tools.createChemistryHeader module
  - pbalign.tools.extractUnmappedSubreads module
  - pbalign.tools.loadChemistry module
  - pbalign.tools.mask_aligned_reads module
  - Module contents
- pbalign.utils package
  - Submodules
  - pbalign.utils.RgnH5IO module
  - pbalign.utils.fileutil module
  - pbalign.utils.progutil module
  - pbalign.utils.tempfileutil module
  - Module contents

## Submodules

## pbalign.bampostservice module

## pbalign.ccs module

## pbalign.filterservice module

## pbalign.options module

## pbalign.pbalignfiles module

## pbalign.pbalignrunner module

## pbalign.service module

## Module contents