Showing 10 of 10 results

• 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

  DPL005RCG

  active

  A short overview of the main analysis steps for eQTL Catalogue

  Assays: RNA-seq, whole genome sequencing assay

  Software: RNA-seq quantification: eQTL-Catalogue/rnaseq, Gene expression QC and normalisation: eQTL-Catalogue/qcnorm, Genotype QC and imputation: eQTL-Catalogue/genimpute, Association testing and fine mapping: eQTL-Catalogue/qtlmap

• Pipeline

  DPL172PKH

  active

  RNA-seq Pipeline PLoS Genet. 2021-05-13;17(5):e100953

  Assays: RNA-seq

  Software: STAR, RSEM

• Pipeline

  DPL118KGX

  active

  ChIP-seq Pipeline Ellinor Lab

  Assays: ChIP-seq

  Software: BWA, Picard, MACS2, BEDTools, ChromHMM

• Pipeline

  DPL610SXT

  active

  RNA-seq Pipeline (Paired-ended, ENCODE)

  Assays: RNA-seq

  Software: STAR, bedGraphToBigWig, RSEM

• Pipeline

  DPL610SXTsingleended

  active

  RNA-seq Pipeline (Single-ended, ENCODE)

  Assays: RNA-seq

  Software: STAR, RSEM, bedGraphToBigWig

• 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