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Assay
2
ATAC-seq
1
RNA-seq
Pipeline status
3
active
Pipeline groups
1
ATAC-seq Pipeline Cebola Lab
1
ATAC-seq Pipeline Cebola Lab (Hepatocytes)
1
ChIP-Atlas Pipeline
1
ChIP-seq Pipeline Cebola Lab
DNase-seq Pipeline (ENCODE)
1
RNA-seq Pipeline (Paired-ended, ENCODE)
1
RNA-seq Pipeline (Single-ended, ENCODE)
1
RNA-seq Pipeline 2 (Paired-ended, ENCODE)
1
RNA-seq Pipeline 2 (Single-ended, ENCODE)
1
RNA-seq Pipeline Cebola Lab
Software
3
bedGraphToBigWig
2
BEDTools
2
Bowtie 2
2
MACS2
2
Samtools
2
deepTools
2
fastp
1
Picard
1
RSEM
1
STAR
0
BEDOPS
0
lrna-align-tophat-pe
Developed by
2
Ines Cebola, Imperial College London
1
AMP-T2D consortium
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DNase-seq Pipeline (ENCODE)
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Pipeline
DPL779IGH
active
ATAC-seq Pipeline Cebola Lab (Hepatocytes)
Assays:
ATAC-seq
Software:
fastp, Bowtie 2, Samtools, BEDTools, deepTools, MACS2, bedGraphToBigWig
Pipeline
DPL741HGX
active
ATAC-seq Pipeline Cebola Lab
Assays:
ATAC-seq
Software:
fastp, Bowtie 2, Samtools, Picard, BEDTools, deepTools, MACS2, bedGraphToBigWig
Pipeline
DPL610SXT
active
RNA-seq Pipeline (Paired-ended, ENCODE)
Assays:
RNA-seq
Software:
STAR, bedGraphToBigWig, RSEM