Korkmaz Lab

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1. OMICohort OMICohort Public

   Multi-cohort survival meta-analysis tool for any molecular score across 53 public cohorts, 7 cancer types and 10,430 patients.

   R 1

2. chipseq-pipeline chipseq-pipeline Public

   A standardized and reproducible ChIP-seq analysis pipeline used in Korkmaz Lab

3. RNASeq-DESeq RNASeq-DESeq Public

   A workflow for analysis of paired-end RNA-seq data and downstream differential gene expression analysis.

4. single-cell-RNA-seq single-cell-RNA-seq Public

5. MAGeCK MAGeCK Public

   A Workflow of Model-based Analysis of Genome-wide CRISPR/Cas9 Knockout (MAGeCK)

6. TF-Activity-VIPER-Workflow TF-Activity-VIPER-Workflow Public

   Methods reference for transcription factor activity inference using ARACNe-AP and VIPER, with DoRothEA as a curated alternative.