Computing hardware

High-Throughput Sequencing Tools

Cortex

Cortex is a package designed for genome assembly, variant discovery and genotyping analysis on  sequence data.

URL:  http://cortexassembler.sourceforge.net/

Email: zam@well.ox.ac.uk

cortex_logoDeveloped by:

Dr Zamin Iqbal

 

 

Platypus

Platypus is a tool designed for efficient and accurate variant-detection in high-throughput sequencing data.

URL: http://www.well.ox.ac.uk/platypus

Email: rimmer@well.ox.ac.uk

Platypus SoftwareDeveloped by:

Dr Andrew Rimmer

Iain Mathieson

Dr Gerton Lunter

 

 

Stampy

Stampy is a powerfull tool designed for ultra sensitive and specific mapping of short read sequences onto a reference genome.

URL: http://www.well.ox.ac.uk/project-stampy

Email: gerton.lunter@well.ox.ac.uk

StampyDeveloped by:

Dr Gerton Lunter

 

 

VCFTools

VCFtools is a program designed for manipulating vcf files generated by variant callers.                                                               

URL: http://vcftools.sourceforge.net/

Email: adam.auton@einstein.yu.edu

VCFToolsDeveloped by:

Dr Adam Auton