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Assay
1
ATAC-seq
1
DNase-seq
Pipeline status
2
active
Pipeline groups
ATAC-seq Pipeline (ENCODE replicated)
1
ATAC-seq Pipeline (ENCODE unreplicated)
1
DNase-seq Pipeline (ENCODE)
Software
2
Picard
2
Samtools
2
bedToBigBed
2
cutadapt
1
BEDOPS
1
BEDTools
1
BWA
1
Bowtie 2
1
Digital genomic footprinting
1
Irreproducible Discovery Rate (IDR)
1
MACS2
1
hotspot2
1
overlap_peaks.py
1
sambamba
Developed by
2
AMP-T2D consortium
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ATAC-seq Pipeline (ENCODE replicated)
Showing 2 of 2 results
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Pipeline
DPL930NXT
active
DNase-seq Pipeline (ENCODE)
Assays:
DNase-seq
Software:
hotspot2, BEDOPS, BWA, cutadapt, Samtools, Picard, Digital genomic footprinting, bedToBigBed
Pipeline
DPL967MZM
active
ATAC-seq Pipeline (ENCODE unreplicated)
Assays:
ATAC-seq
Software:
Bowtie 2, Samtools, Picard, cutadapt, sambamba, Irreproducible Discovery Rate (IDR), overlap_peaks.py, MACS2, BEDTools, bedToBigBed