Serdar Bozdag

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Benchmarking variation and RNA-seq analyses on Amazon Web Services with Docker

OverviewWe developed a freely available, easy to run implementation of bcbio-nextgen on Amazon Web Services (AWS) using Docker. bcbio is a community …

New Software Analyzes Human Genomes Faster than Other Available Technologies

Investigators at Nationwide Children’s Hospital have developed an analysis “pipeline” that slashes the time it takes to search a person’s genome for …

Quantitative visualization of alternative exon expression from RNA-Seq data

Analysis of RNA sequencing (RNA-Seq) data revealed that the vast majority of human genes express multiple mRNA isoforms, produced by alternative …

Omics Pipe: A Community-based Framework for Reproducible Multi-Omics Data Analysis

Omics Pipe is a computational framework that automates multi-omics data analysis pipelines on high performance compute clusters and in the cloud. It …

An integrative method to normalize RNA-Seq data

Transcriptome sequencing is a powerful tool for measuring gene expression, but as well as some other technologies, various artifacts and biases …

Rcount - simple and flexible RNA-Seq read counting

Analysis of differential gene expression by RNA sequencing (RNA-Seq) is frequently done using feature counts, i.e. the number of reads mapping to a …

QuaCRS - An Integrated RNA-Seq Quality Control Pipeline

QuaCRS (Quality Control for RNA-Seq) is an integrated, simplified quality control (QC) system for RNA-seq data that allows easy execution of several …