FastqPuri
include Directory Reference

Files

file  adapters.h [code]
 sequence manipulation for alignment
 
file  bloom.h [code]
 functions that implement the bloom filter
 
file  city.h [code]
 functions for hashin strings, C translation of cityhash (C++, google)
 
file  citycrc.h [code]
 functions for hashin strings, C translation of cityhash (C++, google)
 
file  defines.h [code]
 Macro definitions.
 
file  fa_read.h [code]
 reads in and stores fasta files
 
file  fopen_gen.h [code]
 Uncompress/compress input/output files using pipes.
 
file  fq_read.h [code]
 fastq entries manipulations (read/write)
 
file  init_makeBloom.h [code]
 Help dialog for makeBloom and initialization of the command line arguments.
 
file  init_makeTree.h [code]
 Help dialog for makeTree and initialization of the command line arguments.
 
file  init_Qreport.h [code]
 Header file: help dialog for Qreport and initialization of the command line arguments.
 
file  init_Sreport.h [code]
 Help dialog for Sreport and initialization of the command line arguments.
 
file  init_trimFilter.h [code]
 help dialog for trimFilter and initialization of the command line arguments.
 
file  init_trimFilterDS.h [code]
 help dialog for trimFilterDS and initialization of the command line arguments.
 
file  io_trimFilter.h [code]
 buffer fq output, write summary file
 
file  io_trimFilterDS.h [code]
 buffer fq output, write summary file
 
file  Lmer.h [code]
 Manipulation of Lmers and sequences.
 
file  Rcommand_Qreport.h [code]
 get Rscript command for Qreport
 
file  Rcommand_Sreport.h [code]
 get Rscript command for Sreport
 
file  stats_info.h [code]
 Construct the quality report variables and update them.
 
file  str_manip.h [code]
 functions that do string manipulation
 
file  struct_trimFilter.h [code]
 structure where the input arguments of trimFilter and trimFilterDS will be stored and function to free the memory of it.
 
file  tree.h [code]
 Construction of tree, check paths, write tree, read in tree.
 
file  trim.h [code]
 trims/filter sequences after Quality, N's contaminations.
 
file  trimDS.h [code]
 trim adapters from double stranded data