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| author | Calvin <calvin@barnabas.dhcp.drexel.edu> | 2013-06-07 12:27:45 -0400 |
|---|---|---|
| committer | Calvin <calvin@barnabas.dhcp.drexel.edu> | 2013-06-07 12:27:45 -0400 |
| commit | 4c4316709f3a2bb5a44a1d4d29f9da8f32241dba (patch) | |
| tree | e2ddf4aad71b83abdc35acfd308418aa14bca50e /src/c/quikr.c | |
| parent | 39f3f007463133f827df61d48a9ec76c7699b30f (diff) | |
updated help text and manpages
Diffstat (limited to 'src/c/quikr.c')
| -rw-r--r-- | src/c/quikr.c | 2 |
1 files changed, 1 insertions, 1 deletions
diff --git a/src/c/quikr.c b/src/c/quikr.c index 123756c..17d6480 100644 --- a/src/c/quikr.c +++ b/src/c/quikr.c @@ -12,7 +12,7 @@ #include "quikr_functions.h" #define sensing_matrix(i,j) (sensing_matrix[width*i + j]) -#define USAGE "Usage:\n\tmultifasta_to_otu [OPTION...] - Calculate estimated frequencies of bacteria in a sample.\n\nOptions:\n\n-i, --input\n\tthe sample's fasta file of NGS READS (fasta format)\n\n-f, --sensing-fasta\n\tlocation of the fasta file database used to create the sensing matrix (fasta format)\n\n-s, --sensing-matrix\n\t location of the sensing matrix. (trained from quikr_train)\n\n-k, --kmer\n\tspecify what size of kmer to use. (default value is 6)\n\n-l, --lambda\n\tlambda value to use. (default value is 10000)\n\n-o, --output\n\tthe sensing matrix. (a gzip'd text file)\n\n-v, --verbose\n\tverbose mode.\n\n-d, --debug\n\tdebug mode, read manpage for more details" +#define USAGE "Usage:\n\tmultifasta_to_otu [OPTION...] - Calculate estimated frequencies of bacteria in a sample.\n\nOptions:\n\n-i, --input\n\tthe sample's fasta file of NGS READS (fasta format)\n\n-f, --sensing-fasta\n\tlocation of the fasta file database used to create the sensing matrix (fasta format)\n\n-s, --sensing-matrix\n\t location of the sensing matrix. (trained from quikr_train)\n\n-k, --kmer\n\tspecify what size of kmer to use. (default value is 6)\n\n-l, --lambda\n\tlambda value to use. (default value is 10000)\n\n-o, --output\n\tOTU_FRACTION_PRESENT a vector representing the percentage of database sequence's presence in sample. (csv output)\n\n-v, --verbose\n\tverbose mode.\n\n-d, --debug\n\tdebug mode, read manpage for more details" int main(int argc, char **argv) { |