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Filename
rna_s1221_S42_seqtool_mqc.tsv
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s3://natera-platform-sandbox/users/smarinkovic/rnapipeline_exon_skipping_vcf_bgzip_test/QC/seqtool/rna_s1221_S42_seqtool_mqc.tsv
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rnapipeline_exon_skipping_vcf_bgzip_test
Published
Jun 08, 2026 9:00 AM

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#id: 'seqtools_metrics'
#plot_type: 'generalstats'
#pconfig:
# reads:
# namespace: 'SeqTools (general stats)'
# title: 'Reads'
# description: 'SeqTools (general stats) — reads'
# format: '{:,.0f}'
# min: 0
# frac_unmapped:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Unmapped'
# description: 'SeqTools (general stats) — frac unmapped'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# frac_dupes:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Dupes'
# description: 'SeqTools (general stats) — frac dupes'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# unique_reads:
# namespace: 'SeqTools (general stats)'
# title: 'Unique Reads'
# description: 'SeqTools (general stats) — unique reads'
# format: '{:,.0f}'
# min: 0
# frac_reads_on_target:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Reads On Target'
# description: 'SeqTools (general stats) — frac reads on target'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# frac_pairs_on_target:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Pairs On Target'
# description: 'SeqTools (general stats) — frac pairs on target'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# frac_reads_off_target:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Reads Off Target'
# description: 'SeqTools (general stats) — frac reads off target'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# frac_pairs_off_target:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Pairs Off Target'
# description: 'SeqTools (general stats) — frac pairs off target'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# reads_on_target:
# namespace: 'SeqTools (general stats)'
# title: 'Reads On Target'
# description: 'SeqTools (general stats) — reads on target'
# format: '{:,.0f}'
# min: 0
# pairs_on_target:
# namespace: 'SeqTools (general stats)'
# title: 'Pairs On Target'
# description: 'SeqTools (general stats) — pairs on target'
# format: '{:,.0f}'
# min: 0
# reads_off_target:
# namespace: 'SeqTools (general stats)'
# title: 'Reads Off Target'
# description: 'SeqTools (general stats) — reads off target'
# format: '{:,.0f}'
# min: 0
# pairs_off_target:
# namespace: 'SeqTools (general stats)'
# title: 'Pairs Off Target'
# description: 'SeqTools (general stats) — pairs off target'
# format: '{:,.0f}'
# min: 0
# mean_depth:
# namespace: 'SeqTools (general stats)'
# title: 'Mean Depth'
# description: 'SeqTools (general stats) — mean depth'
# format: '{:,.2f}'
# q50_depth:
# namespace: 'SeqTools (general stats)'
# title: 'Q50 Depth'
# description: 'SeqTools (general stats) — q50 depth'
# format: '{:,.2f}'
# frac_bases_gt30x:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Bases Gt30X'
# description: 'SeqTools (general stats) — frac bases gt30x'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# frac_bases_gt100x:
# namespace: 'SeqTools (general stats)'
# title: 'Frac Bases Gt100X'
# description: 'SeqTools (general stats) — frac bases gt100x'
# format: '{:,.2f}'
# suffix: '%'
# max: 100
# min: 0
# scale: 'RdYlGn'
# n_q30:
# namespace: 'SeqTools (general stats)'
# title: 'N Q30'
# description: 'SeqTools (general stats) — n q30'
# format: '{:,.2f}'
# gc_bias:
# namespace: 'SeqTools (general stats)'
# title: 'GC Bias'
# description: 'SeqTools (general stats) — Ratio of high GC (63-100%) to low GC (0-43%) reads'
# format: '{:,.3f}'
# min: 0
# scale: 'RdYlGn'
Sample reads frac_unmapped frac_dupes unique_reads frac_reads_on_target frac_pairs_on_target frac_reads_off_target frac_pairs_off_target reads_on_target pairs_on_target reads_off_target pairs_off_target mean_depth q50_depth frac_bases_gt30x frac_bases_gt100x n_q30 gc_bias
'rna_s1221_S42' 19856016 0.004184 0.198696 15910708 0.936331 0.962063 0.058448 0.037937 14897693 7595561 929947 299519 32.871356 5.0 0.28179 0.079357 0.985019 0.0
135 rows