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