This is an automated email from the git hooks/post-receive script. tille pushed a commit to branch master in repository seqtk.
commit f986d36e2a730eb0baa49b04ef2fe8b3c1189fd4 Author: Andreas Tille <[email protected]> Date: Sat Feb 1 15:34:05 2014 +0100 Add manpage initially created by help2man and edited afterwards --- debian/manpages | 1 + debian/rules | 4 ++++ debian/seqtk.1 | 48 ++++++++++++++++++++++++++++++++++++++++++++++++ 3 files changed, 53 insertions(+) diff --git a/debian/manpages b/debian/manpages new file mode 100644 index 0000000..0f65186 --- /dev/null +++ b/debian/manpages @@ -0,0 +1 @@ +debian/*.1 diff --git a/debian/rules b/debian/rules index 440a381..c35d9b5 100755 --- a/debian/rules +++ b/debian/rules @@ -5,3 +5,7 @@ %: dh $@ +createmanpage: + help2man --no-info --help-option=" " --no-discard-stderr \ + --name='sampling, trimming, fastq2fasta, subsequence, reverse complement' \ + --version-string="1.0" seqtk > seqtk.1 diff --git a/debian/seqtk.1 b/debian/seqtk.1 new file mode 100644 index 0000000..7cf9fcb --- /dev/null +++ b/debian/seqtk.1 @@ -0,0 +1,48 @@ +.TH SEQTK "1" "February 2014" "seqtk 1.0" "User Commands" +.SH NAME +seqtk \- sampling, trimming, fastq2fasta, subsequence, reverse complement +.SH SYNOPSIS +.B seqtk +\fI<command> <arguments>\fR +.SH DESCRIPTION +.P +Currently, seqtk supports quality based trimming with the phred +algorithm, converting fastq to fasta, reverse complementing sequences, +extracting or masking subsequences in regions given in a BED/name list +file, and more. It contains a subsampling module to sample exactly n +sequences or a fraction of sequences. +.P +Seqtk supports both fasta and fastq input files, which can be +optionally gzip compressed. +.SH COMMANDS +Command: seq common transformation of FASTA/Q +.TP +\fIcomp\fR +get the nucleotide composition of FASTA/Q +.TP +\fIsample\fR +subsample sequences +.TP +\fIsubseq\fR +extract subsequences from FASTA/Q +.TP +\fItrimfq\fR +trim FASTQ using the Phred algorithm +.TP +\fIhety\fR +regional heterozygosity +.TP +\fImutfa\fR +point mutate FASTA at specified positions +.TP +\fImergefa\fR +merge two FASTA/Q files +.TP +\fIrandbase\fR +choose a random base from hets +.TP +\fIcutN\fR +cut sequence at long N +.TP +\fIlisthet\fR +extract the position of each het -- Alioth's /git/debian-med/git-commit-notice on /srv/git.debian.org/git/debian-med/seqtk.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
