#if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'):
gunzip -c -f '$input' |
#elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'):
bzcat -f '$input' |
#else:
cat '$input' |
#end if
fastx_toolkit
0.0.14
fastqsanger,fastqsanger.gz,fastqsanger.bz2
fastqsolexa,fastqsolexa.gz,fastqsolexa.bz2
fastqillumina,fastqillumina.gz,fastqillumina.bz2
@SANGER@,@SOLEXA@,@ILLUMINA@
fasta,fasta.gz
@UNPUBLISHED{agordon,
author = "Assaf Gordon",
title = "FASTQ/A short-reads pre-processing tools",
year = "2010",
note = "http://hannonlab.cshl.edu/fastx_toolkit/",
url = "http://hannonlab.cshl.edu/fastx_toolkit/"}