Looper gold summary

Stats summary file
sample_name sample_description treatment_description organism protocol data_source SRR SRX Sample_geo_accession Sample_series_id read_type Sample_instrument_model read1 read2 Raw_reads Fastq_reads Trimmed_reads Trim_loss_rate Mapped_reads QC_filtered_reads Aligned_reads Alignment_rate Total_efficiency Mitochondrial_reads NRF PBC1 PBC2 Unmapped_reads Duplicate_reads Dedup_aligned_reads Dedup_alignment_rate Dedup_total_efficiency Read_length Genome_size Frac_exp_unique_at_10M TSS_score Peak_count File_mb Read_type Genome Aligned_reads_rCRSd Alignment_rate_rCRSd Aligned_reads_human_repeats Alignment_rate_human_repeats Time Success
gold1 ATAC-seq from dendritic cell (ENCLB065VMV) Homo sapiens dendritic in vitro differentiated cells trea... human ATAC-seq SRA SRR5210416 SRX2523872 GSM2471255 GSE94182 PAIRED Illumina HiSeq 2000 /project/shefflab/data/sra_fastq//SRR5210416_1.fastq.gz /project/shefflab/data/sra_fastq//SRR5210416_2.fastq.gz 137944752 137944752 137924802 0.01 103770862 8341982 95428880 69.19 69.18 14500 0.94 0.97 32.71 3342300 2001987 93426893.0 67.74 67.73 76 3099922541 0.9721 9.3 382788 6493 PAIRED hg38 21049900.0 15.26 9761740.0 7.08 0:16:56 09-15-12:33:08
gold2 ATAC-seq from dendritic cell (ENCLB811FLK) Homo sapiens dendritic in vitro differentiated cells trea... human ATAC-seq SRA SRR5210450 SRX2523906 GSM2471300 GSE94222 PAIRED Illumina HiSeq 2000 /project/shefflab/data/sra_fastq//SRR5210450_1.fastq.gz /project/shefflab/data/sra_fastq//SRR5210450_2.fastq.gz 28408648 28408648 28408460 0.0 16069631 1124479 14945152 52.61 52.61 801 0.93 0.96 27.69 116839 272965 14672187.0 51.65 51.65 50 3099922541 0.9219 13.1 420249 1604 PAIRED hg38 11074130.0 38.98 1147860.0 4.04 0:04:07 09-15-12:21:37
gold3 ATAC-seq from dendritic cell (ENCLB887PKE) Homo sapiens dendritic in vitro differentiated cells trea... human ATAC-seq SRA SRR5210398 SRX2523862 GSM2471249 GSE94177 PAIRED Illumina NextSeq 500 /project/shefflab/data/sra_fastq//SRR5210398_1.fastq.gz /project/shefflab/data/sra_fastq//SRR5210398_2.fastq.gz 166092252 166092252 166090588 0.0 123924925 9613401 114311524 68.82 68.82 14199 0.9 0.95 18.89 2236283 3152724 111158800.0 66.93 66.93 40 3099922541 0.9696 11.0 380540 4809 PAIRED hg38 29229450.0 17.6 10699930.0 6.44 0:16:01 09-15-12:33:34
gold4 ATAC-seq from dendritic cell (ENCLB586KIS) Homo sapiens dendritic in vitro differentiated cells trea... human ATAC-seq SRA SRR5210428 SRX2523884 GSM2471269 GSE94196 PAIRED Illumina HiSeq 2000 /project/shefflab/data/sra_fastq//SRR5210428_1.fastq.gz /project/shefflab/data/sra_fastq//SRR5210428_2.fastq.gz 101078490 101078490 101077540 0.0 78149573 6702363 71447210 70.69 70.68 6339 0.94 0.97 35.97 1368463 1038863 70408347.0 69.66 69.66 42 3099922541 0.9785 7.7 305045 3136 PAIRED hg38 14045392.0 13.9 7514112.0 7.43 0:11:41 09-15-12:29:13
gold5 ATAC-seq from dendritic cell (ENCLB384NOX) Homo sapiens dendritic in vitro differentiated cells trea... human ATAC-seq SRA SRR5210390 SRX2523854 GSM2471245 GSE94173 PAIRED Illumina HiSeq 2000 /project/shefflab/data/sra_fastq//SRR5210390_1.fastq.gz /project/shefflab/data/sra_fastq//SRR5210390_2.fastq.gz 104881014 104881014 104879682 0.0 77851214 5811232 72039982 68.69 68.69 8198 0.94 0.97 32.2 1375826 1264637 70775345.0 67.48 67.48 42 3099922541 0.9511 13.6 285312 3272 PAIRED hg38 19947382.0 19.02 5705260.0 5.44 0:11:21 09-15-12:28:54

Plot a column

Looper project objects

Figures
Fig.0 Alignment percent file
Fig.1 Alignment raw file
Fig.2 TSS enrichment file
Fig.3 Library complexity file