Sample name: HelaS3_GRO-seq

Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary

sample_name HelaS3_GRO-seq
sample_desc HelaS3 GRO-seq
treatment none
protocol GRO
organism human
read_type SINGLE
umi_len 0
read1 ['/project/shefflab/data//sra_fastq/SRR1693611.fastq.gz', '/project/shefflab/data//sra_fastq/SRR1693612.fastq.gz']
srr SRR169361[1-2]
Raw_reads 72718941
Fastq_reads 72718941
Reads_with_adapter 22179715.0
Uninformative_adapter_reads 0.0
Pct_uninformative_adapter_reads 0.0
Trimmed_reads 72718941
Trim_loss_rate 0.0
Peak_adapter_insertion_size 0
Degradation_ratio 0.0
Aligned_reads_human_rDNA 40879756.0
Alignment_rate_human_rDNA 56.22
Mapped_reads 21029691
QC_filtered_reads 6163527
Aligned_reads 14866164
Alignment_rate 20.44
Total_efficiency 20.44
Read_depth 2.34
Mitochondrial_reads 1906316
Maximum_read_length 51
Genome_size 3099922541
NRF 0.72
PBC1 0.91
PBC2 13.55
Unmapped_reads 10809494
TSS_coding_score 7.3
TSS_non-coding_score 4.1
File_mb 3550.33
Read_type SINGLE
Genome hg38
Pause_index 4.92
Plus_FRiP 0.37
Minus_FRiP 0.33
mRNA_contamination 3.22
Time 0:16:11
Success 06-14-21:30:12

HelaS3_GRO-seq objects

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