Salmon & kallisto: Rapid Transcript Quantification for RNA-Seq Data

Salmon & kallisto: Rapid Transcript Quantification for RNA-Seq Data

Salmon and kallisto might sound like a tasty entree from a hip Tribeca restaurant, but the duo are in fact a pair of next-generation applications for rapid transcript quantification. They represent a new approach to transcript quantification using NGS that has a number of advantages over existing alignment-based methods. I’ve tried them both out and… [read more]

Node to Joy: Maximize Your Performance on the HPC

Node to Joy: Maximize Your Performance on the HPC

In this post we’ll discuss maximizing your performance on the HPC. This entry is aimed towards experienced HPC users; for new users, please see Getting Started on the HPC. Recent advances in sequencing technology have made High Performance Computing (HPC) more critical than ever in data-driven biological research. NYU’s HPC resources are available to all… [read more]

Variant Calling Pipeline: FastQ to Annotated SNPs in Hours

Variant Calling Pipeline: FastQ to Annotated SNPs in Hours

Identifying genomic variants, such as single nucleotide polymorphisms (SNPs) and DNA insertions and deletions (indels), can play an important role in scientific discovery. To this end, a pipeline has been developed to allow researchers at the CGSB to rapidly identify and annotate variants. The pipeline employs the Genome Analysis Toolkit (GATK) to perform variant calling… [read more]

Start the New Year Off Right: How to Choose the Right Sequencer

Start the New Year Off Right: How to Choose the Right Sequencer

A new year means new sequencing projects, but how do you know which sequencer is right for your project? There are many factors that go into choosing which sequencing platform and machine will fit your specific project. Factors that must be considered are time, cost, and depth. Making the wrong decision can lead to more time and more… [read more]

The Genomics Core Facility (Gencore) is a state of the art genomics facility enabling high throughput genome sequencing, proteomics and quantitative analyses.

Gencore is located in the Center for Genomics and Systems Biology in the Biology Department at NYU-NY and the Center for Genomics and Systems Biology in NYU-AD.

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