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| author | Calvin Morrison <mutantturkey@gmail.com> | 2013-10-31 15:55:58 -0400 |
|---|---|---|
| committer | Calvin Morrison <mutantturkey@gmail.com> | 2013-10-31 15:55:58 -0400 |
| commit | 36def8a7a0fafc1b16a3c70cecbb7c4a47f2938d (patch) | |
| tree | 3405026db3066e26eeea4feef12d4d7bcf4a4acb /src/c/quikr.1 | |
| parent | 97887138d2e2661c46dd385f08f2dbd70ecaf962 (diff) | |
remove all references to sensing-fasta
Diffstat (limited to 'src/c/quikr.1')
| -rw-r--r-- | src/c/quikr.1 | 7 |
1 files changed, 1 insertions, 6 deletions
diff --git a/src/c/quikr.1 b/src/c/quikr.1 index 89969a6..4418a7f 100644 --- a/src/c/quikr.1 +++ b/src/c/quikr.1 @@ -5,8 +5,6 @@ quikr \- Calculate estimated frequencies of bacteria in a sample. .B quikr .RB [ \-i .IR input] -.RB [ \-f -.IR sensing-fasta] .RB [ \-s .IR sensing-matrix] .RB [ \-l @@ -29,9 +27,6 @@ input FASTA file and a trained sensing matrix .B \-i, --input the sample's fasta file of NGS. READS (fasta format) .TP -.B \-f, --sensing-fasta -location of the fasta file database used to create the sensing matrix. (fasta format) -.TP .B \-s, --sensing-matrix location of the sensing matrix. (trained from quikr_train) .TP @@ -52,7 +47,7 @@ print version. .SH EXAMPLES Use quikr to calculate the estimated frequencies for sample.fa, using rdp7.fasta as the sensing matrix we generated with quikr_train. This uses 6-mers by default, and a lambda value of 10000: .P -quikr -i sample.fa -f rdp7.fa -s rdp_sensing_matrix.gz -o frequencies.txt +quikr -i sample.fa -s rdp_sensing_matrix.gz -o frequencies.txt .SH "SEE ALSO" \fBmultifasta_to_otu\fP(1), \fBquikr_train\fP(1). .SH AUTHORS |