Man page - yara_indexer(1)

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• alf(1)
• mason_materializer(1)
• pair_align(1)
• gustaf(1)
• stellar(1)
• razers3(1)
• sak(1)
• yara_indexer(1)
• mason_frag_sequencing(1)
• micro_razers(1)
• rabema_prepare_sam(1)
• insegt(1)
• rabema_build_gold_standard(1)
• splazers(1)
• seqan_tcoffee(1)
• yara_mapper(1)
• tree_recon(1)
• mason_genome(1)
• mason_methylation(1)
• razers(1)
• snp_store(1)
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Manual

YARA_INDEXER

NAME
SYNOPSIS
DESCRIPTION
REQUIRED ARGUMENTS
OPTIONS
Output Options:

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NAME

yara_indexer - Yara Indexer

SYNOPSIS

yara_indexer [ OPTIONS ] < REFERENCE FILE >

DESCRIPTION

Yara - Yet Another Read Aligner.

See http://www.seqan.de/projects/yara for more information.

(c) Copyright 2011-2014 by Enrico Siragusa.

(c) Copyright 2013 by NVIDIA Corporation.

REQUIRED ARGUMENTS

REFERENCE_FILE INPUT_FILE

A reference genome file. Valid filetypes are: .sam[.*] , .raw[.*] , .gbk[.*] , .frn[.*] , .fq[.*] , .fna[.*] , .ffn[.*] , .fastq[.*] , .fasta[.*] , .faa[.*] , .fa[.*] , .embl[.*] , and .bam , where * is any of the following extensions: gz , bz2 , and bgzf for transparent (de)compression.

OPTIONS

-h , --help

Display the help message.

--version

Display version information.

-v , --verbose

Displays verbose output.

Output Options:

-o , --output-prefix OUTPUT_PREFIX

Specify a filename prefix for the reference genome index. Default: use the filename prefix of the reference genome.

-td , --tmp-dir STRING

Specify a temporary directory where to construct the index. Default: use the output directory.

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