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bulk-rnaseq.yaml
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bulk-rnaseq.yaml
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tools:
- name: sortmerna
owner: rnateam
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: edger
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: limma_voom
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: qualimap2_bamqc
owner: refinery-platform
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: deseq2
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: kallisto_quant
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: salmon
owner: bgruening
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: cutadapt
owner: lparsons
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: multiqc
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: hisat2
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: tophat2
owner: devteam
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: sra_tools
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: rgrnastar
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: kallisto_pseudo
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: rmarkdown_wgcna
owner: mingchen0919
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: htseq_count
owner: lparsons
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastqc
owner: devteam
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: featurecounts
owner: iuc
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: gtf2gene_list
owner: ebi-gxa
tool_panel_section_label: Util
tool_shed_url: toolshed.g2.bx.psu.edu
- name: text_processing
owner: bgruening
tool_panel_section_label: Util
tool_shed_url: toolshed.g2.bx.psu.edu
- name: rseqc
owner: nilesh
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: package_qualimap_2_2
owner: refinery-platform
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_quality_filter
owner: devteam
tool_panel_section_label: RNA-Seq
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastx_artifacts_filter
owner: devteam
tool_panel_section_label: FASTA/FASTQ manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bowtie2
owner: devteam
tool_panel_section_label: Mapping
tool_shed_url: toolshed.g2.bx.psu.edu
- name: data_manager_refgenie_pull
owner: blankenberglab
tool_panel_section_label: Manage Data
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_trimmer_by_quality
owner: devteam
tool_panel_section_label: FASTA/FASTQ manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_filter_n
owner: ebi-gxa
tool_panel_section_label: FASTA/FASTQ manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_trim_poly_at
owner: ebi-gxa
tool_panel_section_label: FASTA/FASTQ manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: atlas_fastq_provider
owner: ebi-gxa
tool_panel_section_label: Get Data
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_view
owner: iuc
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_quality_trimmer
owner: ebi-gxa
tool_panel_section_label: FASTA/FASTQ manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_pair
owner: ebi-gxa
tool_panel_section_label: FASTA/FASTQ manipulation
tool_shed_url: toolshed.g2.bx.psu.edu