Search – Common Metabolic Diseases Genome Atlas

Pipeline
DPL857456
active
Peak Alignment Pipeline
Assays: ATAC-seq
Software: Peak alignment
Pipeline
DPL255HPT
active
scRNA-seq clustering for HPAP dataset
Pipeline
DPL066WNI
active
Pseudo-bulk gene expression and differential activity (Elgamal et al.)
Assays: single cell isolation followed by RNA-seq
Pipeline
DPL472KCS
active
Annotation pipeline popularVote (popV for short) from Tabula Sapiens
Assays: single cell isolation followed by RNA-seq
Pipeline
DPL126DIZ
active
Pipeline holder for unknown or undefined pipeline
Pipeline
DPL779IGH
active
ATAC-seq Pipeline Cebola Lab (Hepatocytes)
Assays: ATAC-seq
Software: fastp, Bowtie 2, Samtools, BEDTools, deepTools, MACS2, bedGraphToBigWig
Pipeline
DPL245EPK
active
ChIP-seq Pipeline Cebola Lab
Assays: ChIP-seq
Software: fastp, Bowtie 2, Samtools, BEDTools, deepTools, MACS2, bedGraphToBigWig
Pipeline
DPL983WYV
active
ChIP-Atlas Pipeline
Assays: ChIP-seq, DNase-seq
Software: SRA_Toolkit, Bowtie 2, Samtools, BEDTools, bedGraphToBigWig, MACS2, unknown, CoLo
Pipeline
DPL010CNP
active
Activity by Contact
Assays: ATAC-seq, ChIP-seq, DNase-seq
Software: MACS2, BEDTools, makeCandidateRegions.py, run.neighborhoods.py, predict.py, getVariantOverlap.py