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adapter adapter trimming alignment annotation annovar assembly atac-seq bacteria bioanalyzer bisulphite blast bowtie breakdancer bwa bwa sampe chip-seq cluster density cnvnator covaris coverage cuffcompare cuffdiff cufflinks cuffmerge cummerbund deseq dexseq error fastq fastqc fpkm gatk gff htseq-count illumina ion torrent java junction search failed lncrna metagenomics mirna miseq mpileup newbler nextera normalization pacbio picard pindel prep_reads primer rna-seq rnaseq rpkm samtools sanger/illumina 1.9 segmentation fault seq seqmonk snp soap solid strand-specific tophat tophat-fusion-post truseq varscan vcf vcftools velvet

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