Toggle navigation
Home
About
Project overview
Policies
News
Contact
Data
Experiments
Annotations
Single Cell Embeddings
Statistical Models
Gene Perturbations
Data Standards & QC
Pipelines
Consortia
Publications
Tools
Single Cell Browser
Help
Getting started
Schema
Clear Filters
Assay
2
ATAC-seq
1
DNase-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
1
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
Samtools
2
BEDTools
2
Bowtie 2
2
MACS2
2
Picard
2
bedGraphToBigWig
2
deepTools
2
fastp
1
BEDOPS
1
BWA
1
Digital genomic footprinting
1
bedToBigBed
1
cutadapt
1
hotspot2
0
lrna-align-tophat-pe
Developed by
2
Ines Cebola, Imperial College London
1
AMP-T2D consortium
Showing 3 of 3 results
table-tab-icon
matrix-icon
Pipeline
DPL930NXT
active
DNase-seq Pipeline (ENCODE)
Assays:
DNase-seq
Software:
hotspot2, BEDOPS, BWA, cutadapt, Samtools, Picard, Digital genomic footprinting, bedToBigBed
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