Workflow: wf_get_peaks_scatter_pe.cwl
Fetched 2025-04-30 13:51:01 GMT
Verified with cwltool version 3.1.20221201130942
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- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
https://raw.githubusercontent.com/YeoLab/eclip/master/LICENSE
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| dataset | String | ||
| samples | 861f6184e121b143d0c773d442c2951b[] | ||
| species | String | ||
| chrom_sizes | File | ||
| barcodesfasta | File | ||
| randomer_length | String | ||
| speciesGenomeDir | Directory | ||
| repeatElementGenomeDir | Directory |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| step_get_peaks |
wf_get_peaks_pe.cwl
(Workflow)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| output_input_bam | File[] | ||
| output_ip_neg_bw | File[] | ||
| output_ip_pos_bw | File[] | ||
| output_entropynum | File[] | ||
| output_clipper_bed | File[] | ||
| output_input_neg_bw | File[] | ||
| output_input_pos_bw | File[] | ||
| output_ip_merged_bam | File[] | ||
| output_compressed_peaks | File[] | ||
| output_inputnormed_peaks | File[] | ||
| output_ip_b1_trimx1_fastq | 3d9a97a0afbfe7ae98e845154d42de85[] | ||
| output_ip_b1_trimx2_fastq | 5e218dc19c3a3fd4283992bb2abdc6c9[] | ||
| output_ip_b2_trimx1_fastq | dfefd52a30672ef630f7ca20ba646b17[] | ||
| output_ip_b2_trimx2_fastq | 8a445a1ec67cce70f2aaf807f7d54dbf[] | ||
| output_ip_b1_trimx1_metrics | File[] | ||
| output_ip_b1_trimx2_metrics | File[] | ||
| output_ip_b2_trimx1_metrics | File[] | ||
| output_ip_b2_trimx2_metrics | File[] | ||
| output_input_b1_trimx1_fastq | b7075c7dac58bd2a059602cc17db3029[] | ||
| output_input_b1_trimx2_fastq | 8269f945a3269222fa8a2f2604932ef1[] | ||
| output_ip_b1_mapgenome_stats | File[] | ||
| output_ip_b2_mapgenome_stats | File[] | ||
| output_ip_b1_demuxed_fastq_r1 | File[] | ||
| output_ip_b1_demuxed_fastq_r2 | File[] | ||
| output_ip_b1_maprepeats_stats | File[] | ||
| output_ip_b2_demuxed_fastq_r1 | File[] | ||
| output_ip_b2_demuxed_fastq_r2 | File[] | ||
| output_ip_b2_maprepeats_stats | File[] | ||
| output_input_b1_trimx1_metrics | File[] | ||
| output_input_b1_trimx2_metrics | File[] | ||
| output_ip_b1_output_sorted_bam | File[] | ||
| output_ip_b2_output_sorted_bam | File[] | ||
| output_input_b1_mapgenome_stats | File[] | ||
| output_input_b1_demuxed_fastq_r1 | File[] | ||
| output_input_b1_demuxed_fastq_r2 | File[] | ||
| output_input_b1_maprepeats_stats | File[] | ||
| output_ip_b1_prermdup_sorted_bam | File[] | ||
| output_ip_b2_prermdup_sorted_bam | File[] | ||
| output_input_b1_output_sorted_bam | File[] | ||
| output_ip_b1_barcodecollapsepe_bam | File[] | ||
| output_ip_b1_sorted_unmapped_fastq | e18467b000d9cacf0b474b5f782c15c0[] | ||
| output_ip_b2_barcodecollapsepe_bam | File[] | ||
| output_ip_b2_sorted_unmapped_fastq | e4db8db5fe43b2abc72b5075aeaa1499[] | ||
| output_input_b1_prermdup_sorted_bam | File[] | ||
| output_ip_b1_trimx1_fastqc_stats_R1 | File[] | ||
| output_ip_b1_trimx1_fastqc_stats_R2 | File[] | ||
| output_ip_b1_trimx2_fastqc_stats_R1 | File[] | ||
| output_ip_b1_trimx2_fastqc_stats_R2 | File[] | ||
| output_ip_b2_trimx1_fastqc_stats_R1 | File[] | ||
| output_ip_b2_trimx1_fastqc_stats_R2 | File[] | ||
| output_ip_b2_trimx2_fastqc_stats_R1 | File[] | ||
| output_ip_b2_trimx2_fastqc_stats_R2 | File[] | ||
| output_ip_b1_mapgenome_star_settings | File[] | ||
| output_ip_b1_trimx1_fastqc_report_R1 | File[] | ||
| output_ip_b1_trimx1_fastqc_report_R2 | File[] | ||
| output_ip_b1_trimx2_fastqc_report_R1 | File[] | ||
| output_ip_b1_trimx2_fastqc_report_R2 | File[] | ||
| output_ip_b2_mapgenome_star_settings | File[] | ||
| output_ip_b2_trimx1_fastqc_report_R1 | File[] | ||
| output_ip_b2_trimx1_fastqc_report_R2 | File[] | ||
| output_ip_b2_trimx2_fastqc_report_R1 | File[] | ||
| output_ip_b2_trimx2_fastqc_report_R2 | File[] | ||
| output_input_b1_barcodecollapsepe_bam | File[] | ||
| output_input_b1_sorted_unmapped_fastq | af066000021705d81ab9e74a1d5cf515[] | ||
| output_ip_b1_maprepeats_star_settings | File[] | ||
| output_ip_b2_maprepeats_star_settings | File[] | ||
| output_input_b1_trimx1_fastqc_stats_R1 | File[] | ||
| output_input_b1_trimx1_fastqc_stats_R2 | File[] | ||
| output_input_b1_trimx2_fastqc_stats_R1 | File[] | ||
| output_input_b1_trimx2_fastqc_stats_R2 | File[] | ||
| output_ip_b1_barcodecollapsepe_metrics | File[] | ||
| output_ip_b2_barcodecollapsepe_metrics | File[] | ||
| output_input_b1_mapgenome_star_settings | File[] | ||
| output_input_b1_trimx1_fastqc_report_R1 | File[] | ||
| output_input_b1_trimx1_fastqc_report_R2 | File[] | ||
| output_input_b1_trimx2_fastqc_report_R1 | File[] | ||
| output_input_b1_trimx2_fastqc_report_R2 | File[] | ||
| output_ip_b1_mapgenome_mapped_to_genome | File[] | ||
| output_ip_b2_mapgenome_mapped_to_genome | File[] | ||
| output_input_b1_maprepeats_star_settings | File[] | ||
| output_ip_b1_maprepeats_mapped_to_genome | File[] | ||
| output_ip_b2_maprepeats_mapped_to_genome | File[] | ||
| output_input_b1_barcodecollapsepe_metrics | File[] | ||
| output_input_b1_mapgenome_mapped_to_genome | File[] | ||
| output_input_b1_maprepeats_mapped_to_genome | File[] |
Permalink:
https://w3id.org/cwl/view/git/c0fffc4979a92371dc0667a03e3d957bf7f77600/cwl/wf_get_peaks_scatter_pe.cwl
