Sample name: H9_PRO-seq_30

Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary

sample_name H9_PRO-seq_30
sample_desc 30% subset H9 PRO-seq 2
treatment DMSO
protocol PRO
organism human
read_type PAIRED
umi_len 8
read1 /project/shefflab/data//guertin/fastq/H9_PRO-seq_30pct_PE...
read2 /project/shefflab/data//guertin/fastq/H9_PRO-seq_30pct_PE...
srr H9_PRO-seq_30pct
Raw_reads 34718962
Fastq_reads 34718962
Reads_with_adapter 13756701.0
Uninformative_adapter_reads 8586429.0
Duplicate_reads 439732.0
Pct_uninformative_adapter_reads 49.4625
Trimmed_reads 16996174
Trim_loss_rate 51.05
Peak_adapter_insertion_size 20
Degradation_ratio 1.0316
Aligned_reads_human_rDNA 1748068.0
Alignment_rate_human_rDNA 10.29
Mapped_reads 13112915
QC_filtered_reads 7664259
Aligned_reads 5448656.5
Alignment_rate 32.06
Total_efficiency 15.69
Read_depth 1.96
Mitochondrial_reads 251868
Maximum_read_length 38
Genome_size 3099922541
Frac_exp_unique_at_10M 0.8535
NRF 1.0
PBC1 2922148.5
PBC2 2922148.5
Unmapped_reads 2000641
TSS_coding_score 33.4
TSS_non-coding_score 12.2
File_mb 732.68
Read_type PAIRED
Genome hg38
Pause_index 32.88
Plus_FRiP 0.39
Minus_FRiP 0.36
mRNA_contamination 1.3
Time 0:23:20
Success 06-14-21:41:53

H9_PRO-seq_30 objects

Links
Figures
Fig.0 Adapter insertion distribution
Fig.1 Library complexity
Fig.2 TSS enrichment
Fig.3 Pause index
Fig.4 cFRiF
Fig.5 FRiF
Fig.6 mRNA contamination