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Gregg Randolph

Gregg Randolph

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vsearch --cluster_unoise derep.fa --centroids zotus_vsearch.fa --sizein --sizeout

Play Around with this, Gregg:

Code Block
system("vsearch --fastx_filter $R1tmpA --fastq_trunclen 215 --fastqout $R1tmpB --threads 32");
system("vsearch --fastx_filter $R2tmpA --fastq_trunclen 215 --fastqout $R2tmpB --threads 32");
print "vsearch step1 complete\n";
if(-e $R1tmpB && -e $R1tmpB){ 
    system("vsearch --fastq_join $R1tmpB --reverse $R2tmpB --fastaout $joinedfile --threads 32");
    unlink($R1tmpA, $R2tmpA, $R1tmpB, $R2tmpB);
}