▼ include | |
adapters.h | Sequence manipulation for alignment |
bloom.h | Functions that implement the bloom filter |
city.h | Functions for hashin strings, C translation of cityhash (C++, google) |
citycrc.h | Functions for hashin strings, C translation of cityhash (C++, google) |
defines.h | Macro definitions |
fa_read.h | Reads in and stores fasta files |
fopen_gen.h | Uncompress/compress input/output files using pipes |
fq_read.h | Fastq entries manipulations (read/write) |
init_makeBloom.h | Help dialog for makeBloom and initialization of the command line arguments |
init_makeTree.h | Help dialog for makeTree and initialization of the command line arguments |
init_Qreport.h | Header file: help dialog for Qreport and initialization of the command line arguments |
init_Sreport.h | Help dialog for Sreport and initialization of the command line arguments |
init_trimFilter.h | Help dialog for trimFilter and initialization of the command line arguments |
init_trimFilterDS.h | Help dialog for trimFilterDS and initialization of the command line arguments |
io_trimFilter.h | Buffer fq output, write summary file |
io_trimFilterDS.h | Buffer fq output, write summary file |
Lmer.h | Manipulation of Lmers and sequences |
Rcommand_Qreport.h | Get Rscript command for Qreport |
Rcommand_Sreport.h | Get Rscript command for Sreport |
stats_info.h | Construct the quality report variables and update them |
str_manip.h | Functions that do string manipulation |
struct_trimFilter.h | Structure where the input arguments of trimFilter and trimFilterDS will be stored and function to free the memory of it |
tree.h | Construction of tree, check paths, write tree, read in tree |
trim.h | Trims/filter sequences after Quality, N's contaminations |
trimDS.h | Trim adapters from double stranded data |
▼ src | |
adapters.c | Sequence manipulation for alignment |
bloom.c | Functions that implement the bloom filter |
city.c | Functions for hashin strings, C translation of cityhash (C++, google) |
fa_read.c | Reads in and stores fasta files |
fopen_gen.c | Uncompress/compress input/output files using pipes |
fq_read.c | Fastq entries manipulations (read/write) |
init_makeBloom.c | Help dialog for makeBloom and initialization of the command line arguments |
init_makeTree.c | Help dialog for makeTree and initialization of the command line arguments |
init_Qreport.c | Help dialog for Qreport and initialization of the command line arguments |
init_Sreport.c | Help dialog for Sreport and initialization of the command line arguments |
init_trimFilter.c | Help dialog for trimFilter and initialization of the command line arguments |
init_trimFilterDS.c | Help dialog for trimFilterDS and initialization of the command line arguments |
io_trimFilter.c | Buffer fq output, write summary file |
Lmer.c | Manipulation of Lmers and sequences |
makeBloom.c | MakeBloom main function |
makeTree.c | MakeTree main function |
Qreport.c | QReport main function |
Rcommand_Qreport.c | Get Rscript command for Qreport |
Rcommand_Sreport.c | Get Rscript command for Sreport |
Sreport.c | Sreport main function |
stats_info.c | Construct the quality report variables and update them |
str_manip.c | Functions that do string manipulation |
struct_trimFilter.c | Function that frees the memory of parTF (structure storing the trimFilter/trimFilterDS input arguments) |
tree.c | Construction of tree, check paths, write tree, read in tree |
trim.c | Trims/filter sequences after Quality, N's contaminations |
trimDS.c | Trim adapters from double stranded data |
trimFilter.c | TrimFilter main function |
trimFilterDS.c | TrimFilterDS main function |