'\" t
.\"     Title: truspades
.\"    Author: [see the "AUTHOR(S)" section]
.\" Generator: Asciidoctor 2.0.20
.\"      Date: 
.\"    Manual: \ \&
.\"    Source: \ \&
.\"  Language: English
.\"
.TH "TRUSPADES" "1" "" "\ \&" "\ \&"
.ie \n(.g .ds Aq \(aq
.el       .ds Aq '
.ss \n[.ss] 0
.nh
.ad l
.de URL
\fI\\$2\fP <\\$1>\\$3
..
.als MTO URL
.if \n[.g] \{\
.  mso www.tmac
.  am URL
.    ad l
.  .
.  am MTO
.    ad l
.  .
.  LINKSTYLE blue R < >
.\}
.SH "NAME"
truspades \- truSPAdes genome assembler
.SH "SYNOPSIS"
.sp
\fBtruspades\fP [options] \-o <output_dir>
.SH "DESCRIPTION"
.sp
\fBtruspades\fP is the main executable for the \fBtruSPAdes\fP software. It
assembles genomic reads given to it and places the resulting assembly in
<output_dir>.
.SH "OPTIONS"
.SS "Basic options"
.sp
\fB\-o\fP <output_dir>
.RS 4
directory to store all the resulting files (required)
.RE
.sp
\fB\-\-test\fP
.RS 4
runs truSPAdes on toy dataset
.RE
.sp
\fB\-h\fP/\fB\-\-help\fP
.RS 4
prints this usage message
.RE
.sp
\fB\-t\fP/\fB\-\-threads\fP <int>
.RS 4
number of threads
.RE
.sp
\fB\-\-continue\fP
.RS 4
continue interrupted launch
.RE
.sp
\fB\-\-construct\-dataset\fP
.RS 4
parse dataset from input folder
.RE
.SS "Input options"
.sp
\fB\-\-input\-dir\fP <directory>
.RS 4
directory with input data. Note that the directory should contain only files with reads. This option can be used several times to provide several input directories.
.RE
.sp
\fB\-\-dataset\fP <file>:w:
file with dataset description