.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.49.3.
.TH SNAP-ALIGNER "1" "January 2024" "snap-aligner 2.0.3" "User Commands"
.SH NAME
snap-aligner \- scalable nucleotide alignment program
.SH SYNOPSIS
.B snap-aligner
\fI\,<command> \/\fR[\fI\,<options>\/\fR]
.SH DESCRIPTION
Welcome to SNAP version 2.0.3.
.SS "Commands:"
.TP
index
build a genome index
.TP
single
align single\-end reads
.TP
paired
align paired\-end reads
.TP
daemon
run in daemon mode\-\-accept commands remotely
.PP
Type a command without arguments to see its help.