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src

The source code of the Aryana next generation sequencing (NGS) aligner.

Installation

Download Aryana from github and run "make"

Running Aryana

Alignment of single end reads

./aryana [-x human_g1k_v37.fasta] [-U reads.fastq] 
-p INT	Number of threads

-P INT	Number of potential candidates to select for more precise alignment

--seed INT	Fixed length for the seeds

Alignment of paired end reads

./aryana [-x human_g1k_v37.fasta] [-1 pair1.fastq] [-2 pair2.fastq] --{fr, ff, rf} -I min -X max 
--fr/--ff/--rf	Refers to orientation of the pairs. /forward-reverse/forward-forward/reverse-forward

-I INT	Minimum insert size

-X INT	Maximum insert size

src's People

Contributors

aryana-aligner avatar

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