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adapter trimming alignment amplicon sequencing annotation annovar assembly atac-seq bioanalyzer bioconductor bioinformatics blast bowtie breakdancer bwa chip-seq cluster density covaris coverage cuffdiff cufflinks cuffmerge cummerbund cutadapt deseq deseq2 dexseq differential expression edger error fastq fastqc fpkm gatk htseq-count illumina insert size install ion torrent junction search failed metagenomics mirna miseq newbler nextera nextseq ngs normalization novoalign pacbio pindel quality rna-seq rnaseq rpkm samtools sanger/illumina 1.9 segmentation fault sequencing snp soap solid tophat trimmomatic trinity truseq variant calling varscan vcf vcftools velvet

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