FastqPuri
File List
Here is a list of all documented files with brief descriptions:
[detail level 12]
  include
 adapters.hSequence manipulation for alignment
 bloom.hFunctions that implement the bloom filter
 city.hFunctions for hashin strings, C translation of cityhash (C++, google)
 citycrc.hFunctions for hashin strings, C translation of cityhash (C++, google)
 defines.hMacro definitions
 fa_read.hReads in and stores fasta files
 fopen_gen.hUncompress/compress input/output files using pipes
 fq_read.hFastq entries manipulations (read/write)
 init_makeBloom.hHelp dialog for makeBloom and initialization of the command line arguments
 init_makeTree.hHelp dialog for makeTree and initialization of the command line arguments
 init_Qreport.hHeader file: help dialog for Qreport and initialization of the command line arguments
 init_Sreport.hHelp dialog for Sreport and initialization of the command line arguments
 init_trimFilter.hHelp dialog for trimFilter and initialization of the command line arguments
 init_trimFilterDS.hHelp dialog for trimFilterDS and initialization of the command line arguments
 io_trimFilter.hBuffer fq output, write summary file
 io_trimFilterDS.hBuffer fq output, write summary file
 Lmer.hManipulation of Lmers and sequences
 Rcommand_Qreport.hGet Rscript command for Qreport
 Rcommand_Sreport.hGet Rscript command for Sreport
 stats_info.hConstruct the quality report variables and update them
 str_manip.hFunctions that do string manipulation
 struct_trimFilter.hStructure where the input arguments of trimFilter and trimFilterDS will be stored and function to free the memory of it
 tree.hConstruction of tree, check paths, write tree, read in tree
 trim.hTrims/filter sequences after Quality, N's contaminations
 trimDS.hTrim adapters from double stranded data
  src
 adapters.cSequence manipulation for alignment
 bloom.cFunctions that implement the bloom filter
 city.cFunctions for hashin strings, C translation of cityhash (C++, google)
 fa_read.cReads in and stores fasta files
 fopen_gen.cUncompress/compress input/output files using pipes
 fq_read.cFastq entries manipulations (read/write)
 init_makeBloom.cHelp dialog for makeBloom and initialization of the command line arguments
 init_makeTree.cHelp dialog for makeTree and initialization of the command line arguments
 init_Qreport.cHelp dialog for Qreport and initialization of the command line arguments
 init_Sreport.cHelp dialog for Sreport and initialization of the command line arguments
 init_trimFilter.cHelp dialog for trimFilter and initialization of the command line arguments
 init_trimFilterDS.cHelp dialog for trimFilterDS and initialization of the command line arguments
 io_trimFilter.cBuffer fq output, write summary file
 Lmer.cManipulation of Lmers and sequences
 makeBloom.cMakeBloom main function
 makeTree.cMakeTree main function
 Qreport.cQReport main function
 Rcommand_Qreport.cGet Rscript command for Qreport
 Rcommand_Sreport.cGet Rscript command for Sreport
 Sreport.cSreport main function
 stats_info.cConstruct the quality report variables and update them
 str_manip.cFunctions that do string manipulation
 struct_trimFilter.cFunction that frees the memory of parTF (structure storing the trimFilter/trimFilterDS input arguments)
 tree.cConstruction of tree, check paths, write tree, read in tree
 trim.cTrims/filter sequences after Quality, N's contaminations
 trimDS.cTrim adapters from double stranded data
 trimFilter.cTrimFilter main function
 trimFilterDS.cTrimFilterDS main function