gold1


Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary
sample_name gold1
sample_description ATAC-seq from dendritic cell (ENCLB065VMV)
treatment_description Homo sapiens dendritic in vitro differentiated cells treated with 0 ng/mL Lipopolysaccharide for 0 hours
organism human
protocol ATAC-seq
data_source SRA
SRR SRR5210416
SRX SRX2523872
Sample_geo_accession GSM2471255
Sample_series_id GSE94182
read_type PAIRED
Sample_instrument_model Illumina HiSeq 2000
read1 /sfs/lustre/allocations/shefflab/data/sra_fastq/SRR5210416_1.fastq.gz
read2 /sfs/lustre/allocations/shefflab/data/sra_fastq/SRR5210416_2.fastq.gz
File_mb 6493.3235
Read_type paired
Genome hg19
Raw_reads 137944752
Fastq_reads 137944752
Trimmed_reads 137924802
Trim_loss_rate 0.01
Aligned_reads_rCRSd_3k 21049900.0
Alignment_rate_rCRSd_3k 15.26
Aligned_reads_human_repeats 9761740.0
Alignment_rate_human_repeats 7.08
Mapped_reads 103202552
QC_filtered_reads 8281268.0
Aligned_reads 94921284
Alignment_rate 68.82
Total_efficiency 68.81
Mitochondrial_reads 14990.0
NRF 0.94
PBC1 0.97
PBC2 31.77
Unmapped_reads 3910610.0
Duplicate_reads 1973449
Dedup_aligned_reads 92947835.0
Dedup_alignment_rate 67.39
Dedup_total_efficiency 67.38
TSS_Score 9.00420993545
Peak_count 97483
FRiP 0.148278799094
Time 5:33:49
Success 01-04-14:56:08