Read summary
Metadata
| Key | Value |
|---|---|
| sample | CUTLL1 |
| type | test_sample |
| barcode | None |
Software versions
| Name | Version |
|---|---|
| fastcat | 0.13.2 |
| mosdepth | 0.3.3 |
| pairtools | 1.0.2 |
| whatshap | 2.0 |
| pore-c-py | 2.0.5 |
| samtools | 1.17 |
Workflow parameters
| Key | Value |
|---|---|
| help | False |
| version | False |
| ubam | None |
| fastq | fastq/fastq_pass |
| ref | genome/genome.fa |
| cutter | DpnII |
| out_dir | results |
| chunk_size | 25000 |
| sample | CUTLL1 |
| vcf | None |
| pairs | True |
| mcool | True |
| mcool_resolutions | 1000,2000,5000N |
| coverage | True |
| minimap2_settings | -x map-ont |
| threads | 8 |
| ubam_map_threads | 1 |
| digest_annotate_threads | 1 |
| ubam_bam2fq_threads | 1 |
| aws_image_prefix | None |
| aws_queue | None |
| disable_ping | False |
| analyse_unclassified | False |
| monochrome_logs | False |
| validate_params | True |
| show_hidden_params | False |
| schema_ignore_params | show_hidden_params,validate_params,monochrome_logs,aws_queue,aws_image_prefix,wf |
| chromunity | True |
| chromunity_merge_distance | -1 |
| cool_bin_size | 1000 |
| paired_end | False |
| summary_json | True |
| filter_pairs | False |
| paired_end_minimum_distance | -1 |
| paired_end_maximum_distance | -1 |
| sample_sheet | None |
| hi_c | True |
| wf | {'name': 'wf-pore-c', 'example_cmd': ['--cutter NlaIII', '--mcool_resolutions 10,20,30', '--phased_vcf wf-pore-c-demo/porec_test.phased_variants.vcf.gz', '--ref wf-pore-c-demo/porec_test.fasta', '--ubam wf-pore-c-demo/porec_test.concatemers.bam', '--vcf wf-pore-c-demo/porec_test.phased_variants.vcf.gz'], 'common_sha': 'sha0a6dc21fac17291f4acb2e0f67bcdec7bf63e6b7', 'container_sha': 'sha4071ac979d82e19ec935f2afab6eb2495d71d570', 'agent': None} |