File Info

Filename
rna_s1221_S42_kallisto_mqc.tsv
Full Path
s3://natera-platform-sandbox/users/smarinkovic/rnapipeline_vcf_bgzip_final_test/kallisto/rna_s1221_S42_kallisto_mqc.tsv
Size
2.8 KB
Workflow Run
rnapipeline_vcf_bgzip_final_test
Published
Jun 03, 2026 6:02 AM

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#id: 'kallisto_qc_metrics'
#plot_type: 'generalstats'
#pconfig:
# fragment_length_mean:
# namespace: 'Kallisto'
# title: 'Fragment Length Mean'
# description: 'Mean fragment length from kallisto fragment length distribution'
# format: '{:,.1f}'
# min: 0
# suffix: ' bp'
# fragment_length_median:
# namespace: 'Kallisto'
# title: 'Fragment Length Median'
# description: 'Median fragment length from kallisto fragment length distribution'
# format: '{:,.1f}'
# min: 0
# suffix: ' bp'
# pct_mito_est_counts:
# namespace: 'Expression QC'
# title: 'pct Mito est. counts'
# description: 'Percentage of estimated counts from mitochondrial genes; high values can indicate cell damage or stress.'
# format: '{:,.2f}'
# suffix: '%'
# pct_ribo_est_counts:
# namespace: 'Expression QC'
# title: 'pct Ribo est. counts'
# description: 'Percentage of estimated counts from ribosomal genes; useful for assessing RNA quality and technical variation.'
# format: '{:,.2f}'
# suffix: '%'
# pct_hk_est_counts:
# namespace: 'Expression QC'
# title: 'pct Housekeeping est. counts'
# description: 'Percentage of estimated counts from housekeeping genes.'
# format: '{:,.2f}'
# suffix: '%'
# pct_male_est_counts:
# namespace: 'Expression QC'
# title: 'pct Male est. counts'
# format: '{:,.2f}'
# suffix: '%'
# pct_mito_tpm:
# namespace: 'Expression QC'
# title: 'pct Mito TPM'
# description: 'Percentage of TPM from mitochondrial genes; high values can indicate cell damage or stress.'
# format: '{:,.2f}'
# suffix: '%'
# pct_ribo_tpm:
# namespace: 'Expression QC'
# title: 'pct Ribo TPM'
# description: 'Percentage of TPM from ribosomal genes; useful for assessing RNA quality and technical variation.'
# format: '{:,.2f}'
# suffix: '%'
# pct_hk_tpm:
# namespace: 'Expression QC'
# title: 'pct Housekeeping TPM'
# description: 'Percentage of TPM from housekeeping genes.'
# format: '{:,.2f}'
# suffix: '%'
# pct_male_tpm:
# namespace: 'Expression QC'
# title: 'pct Male TPM'
# format: '{:,.2f}'
# suffix: '%'
# score_log2tpm1_mean_chry_signature:
# namespace: 'Expression QC'
# title: 'ChrY Signature Score'
# description: 'Mean log2(TPM+1) score for chrY signature genes; used for sex verification.'
# format: '{:,.2f}'
Sample fragment_length_mean fragment_length_median pct_mito_est_counts pct_ribo_est_counts pct_hk_est_counts pct_male_est_counts pct_mito_tpm pct_ribo_tpm pct_hk_tpm pct_male_tpm score_log2tpm1_mean_chry_signature
'rna_s1221_S42' 175.9 161.0 0.005 4.719 2.835 0.0 0.009 11.334 3.206 0.0 6.823
70 rows