Sample overview

Sample ID: Sample_1210
Biosample name: GM12878
Biosample type: Cell Line
Tissue type: Blood
Cancer type: Normal
Region number: 25
Length: 8.132 kb
GEO/SRA ID: SRR2171250
Mean insert size: --
Standard deviation: --
TSS enrichment score: 1.10678
FRiP: 0.00005
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.

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Accessible chromatin region of GM12878

Use these accessible chromatin regions to analyze or download

TF footprint of GM12878


Peak annotation visualization of GM12878

Plot A

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Plot B

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Note A: - -
Plot B: - -
Note B: - -

Software and parameters used

Read mapping: bowtie2(v2.2.5) -p 10 -X 2000 -x -S
Duplicates Removing: picard MarkDuplicates REMOVE_DUPLICATES=true ASSUME_SORTED=true
Peak calling: macs2(2.1.2) --broad--SPMR --nomodel --extsize 200 -q 0.01
Trimming the adapter: trim_galore --phred33 --stringency 3 --length 20