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lib/R/library/systemPipeR/extdata/cwl/gatk/gatk_variantFiltration.cwl
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lib/R/library/systemPipeR/extdata/cwl/gatk/workflow_gatk_fastq2ubam.cwl
lib/R/library/systemPipeR/extdata/cwl/gatk/workflow_gatk_fixtag.cwl
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lib/R/library/systemPipeR/extdata/cwl/samtools/samtools-sort.yml
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lib/R/library/systemPipeR/extdata/cwl/samtools/samtools-view.yml
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lib/R/library/systemPipeR/extdata/cwl/star/workflow_star-pe-sam_samtools.cwl
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lib/R/library/systemPipeR/extdata/cwl/tophat2/tophat2-mapping-pe.cwl
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lib/R/library/systemPipeR/extdata/cwl/tophat2/workflow_tophat2-mapping-pe.cwl
lib/R/library/systemPipeR/extdata/cwl/tophat2/workflow_tophat2-mapping-se.cwl
lib/R/library/systemPipeR/extdata/cwl/trim_galore/trim_galore-pe.cwl
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lib/R/library/systemPipeR/extdata/cwl/trimmomatic/trimmomatic-pe.cwl
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lib/R/library/systemPipeR/extdata/cwl/trimmomatic/workflow_trimmomatic-se.cwl
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lib/R/library/systemPipeR/extdata/cwl/trinity/trinity_stats.cwl
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lib/R/library/systemPipeR/extdata/cwl/varseq/annotate.cwl
lib/R/library/systemPipeR/extdata/cwl/varseq/combine.cwl
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lib/R/library/systemPipeR/extdata/cwl/varseq/workflow_annotate.cwl
lib/R/library/systemPipeR/extdata/cwl/varseq/workflow_combine.cwl
lib/R/library/systemPipeR/extdata/cwl/varseq/workflow_filter.cwl
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lib/R/library/systemPipeR/extdata/cwl/workflow-bcftools/samtools-sort.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-bcftools/samtools_markduplicates.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-bcftools/workflow_bcftools.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-bowtie2/workflow_bowtie2-pe.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-bowtie2/workflow_bowtie2-pe.yml
lib/R/library/systemPipeR/extdata/cwl/workflow-bowtie2/workflow_bowtie2-se.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-bowtie2/workflow_bowtie2-se.yml
lib/R/library/systemPipeR/extdata/cwl/workflow-bwa-aln/workflow_bwa-aln-se.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-bwa-aln/workflow_bwa-aln-se.yml
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow-hisat2-pe/workflow_hisat2-pe.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow-hisat2-pe/workflow_hisat2-pe.yml
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow-hisat2-se/workflow_hisat2-se.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow-hisat2-se/workflow_hisat2-se.yml
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow_hisat2-pe.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow_hisat2-pe.yml
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow_hisat2-se.cwl
lib/R/library/systemPipeR/extdata/cwl/workflow-hisat2/workflow_hisat2-se.yml
lib/R/library/systemPipeR/extdata/docopt.R/gsnap/gsnap.doc.R
lib/R/library/systemPipeR/extdata/docopt.R/gsnap/gsnap_idx.doc.R
lib/R/library/systemPipeR/extdata/docopt.R/preprocessReads/preprocessReads.doc.R
lib/R/library/systemPipeR/extdata/docopt.R/rsubread/rsubread.doc.R
lib/R/library/systemPipeR/extdata/docopt.R/rsubread/rsubread_idx.doc.R
lib/R/library/systemPipeR/extdata/docopt.R/test/test.doc.R
lib/R/library/systemPipeR/extdata/filter_gatk.param
lib/R/library/systemPipeR/extdata/filter_sambcf.param
lib/R/library/systemPipeR/extdata/filter_vartools.param
lib/R/library/systemPipeR/extdata/gatk.param
lib/R/library/systemPipeR/extdata/gatk_run.sh
lib/R/library/systemPipeR/extdata/gsnap.param
lib/R/library/systemPipeR/extdata/hisat2.param
lib/R/library/systemPipeR/extdata/hisat2PE.param
lib/R/library/systemPipeR/extdata/images/GOslimbarplotMF.png
lib/R/library/systemPipeR/extdata/images/SPR_CWL_hello.png
lib/R/library/systemPipeR/extdata/images/SPR_WF.png
lib/R/library/systemPipeR/extdata/images/SYSargsList.png
lib/R/library/systemPipeR/extdata/images/SystemPipeR_Workflow.png
lib/R/library/systemPipeR/extdata/images/fastqReport.png
lib/R/library/systemPipeR/extdata/images/general.png
lib/R/library/systemPipeR/extdata/images/heatmap1.png
lib/R/library/systemPipeR/extdata/images/spr_project.png
lib/R/library/systemPipeR/extdata/images/targets_con.png
lib/R/library/systemPipeR/extdata/images/utilities.png
lib/R/library/systemPipeR/extdata/macs2.param
lib/R/library/systemPipeR/extdata/macs2_noinput.param
lib/R/library/systemPipeR/extdata/rpkmDFeByg.xls
lib/R/library/systemPipeR/extdata/rsubread.param
lib/R/library/systemPipeR/extdata/rundiff.param
lib/R/library/systemPipeR/extdata/sambcf.param
lib/R/library/systemPipeR/extdata/sambcf_run.sh
lib/R/library/systemPipeR/extdata/spr_simple_lw.Rmd
lib/R/library/systemPipeR/extdata/spr_simple_wf.Rmd
lib/R/library/systemPipeR/extdata/targets.txt
lib/R/library/systemPipeR/extdata/targetsPE.txt
lib/R/library/systemPipeR/extdata/targetsPE_chip.txt
lib/R/library/systemPipeR/extdata/targets_chip.txt
lib/R/library/systemPipeR/extdata/toolsCollection.Rmd
lib/R/library/systemPipeR/extdata/tophat.param
lib/R/library/systemPipeR/extdata/trim.param
lib/R/library/systemPipeR/extdata/trimPE.param
lib/R/library/systemPipeR/extdata/trim_galore.param
lib/R/library/systemPipeR/extdata/trim_galore_run.sh
lib/R/library/systemPipeR/extdata/vartools.param
lib/R/library/systemPipeR/help/AnIndex
lib/R/library/systemPipeR/help/aliases.rds
lib/R/library/systemPipeR/help/paths.rds
lib/R/library/systemPipeR/help/systemPipeR.rdb
lib/R/library/systemPipeR/help/systemPipeR.rdx
lib/R/library/systemPipeR/html/00Index.html
lib/R/library/systemPipeR/html/R.css
lib/R/library/systemPipeR/htmlwidgets/lib/plotwf/dom_to_image.js
lib/R/library/systemPipeR/htmlwidgets/lib/plotwf/full.render.js
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lib/R/library/systemPipeR/htmlwidgets/lib/plotwf/viz.js
lib/R/library/systemPipeR/htmlwidgets/plotwf.js
lib/R/library/systemPipeR/htmlwidgets/plotwf.yaml
lib/R/library/systemPipeR/htmlwidgets/plotwf_legend.svg
