Sample name: H9_PRO-seq_50

Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary

sample_name H9_PRO-seq_50
sample_desc 50% 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_50pct_PE...
read2 /project/shefflab/data//guertin/fastq/H9_PRO-seq_50pct_PE...
srr H9_PRO-seq_50pct
File_mb 1207.83
Read_type PAIRED
Genome hg38
Raw_reads 57859902
Fastq_reads 57859902
Reads_with_adapter 22925851.0
Uninformative_adapter_reads 14307341.0
Duplicate_reads 987746.0
Pct_uninformative_adapter_reads 49.4551
Trimmed_reads 28328462
Trim_loss_rate 51.04
Peak_adapter_insertion_size 20
Degradation_ratio 1.0308
Aligned_reads_human_rDNA 2915278.0
Alignment_rate_human_rDNA 10.29
Mapped_reads 21857551
QC_filtered_reads 12774487
Aligned_reads 9083064.0
Alignment_rate 32.06
Total_efficiency 15.7
Read_depth 2.31
Mitochondrial_reads 420662
Maximum_read_length 38
Genome_size 3099922541
Frac_exp_unique_at_10M 0.8538
NRF 1.0
PBC1 4870901.0
PBC2 4870901.0
Unmapped_reads 3332293
TSS_coding_score 33.8
TSS_non-coding_score 12.3
Pause_index 33.39
Plus_FRiP 0.39
Minus_FRiP 0.36
mRNA_contamination 1.29
Time 1:38:18
Success 06-15-08:55:36

H9_PRO-seq_50 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