HAPDeNovo fe8bcc2-foss-2018b-Python-3.6.6

Deprecated: Use of this version of HAPDeNovo is deprecated. More information on our Applications Support and Retention Policy.

HAPDeNovo is a software package to detect de novo mutations on barcoded linked read sequencing. We identified the major source of de novo mutation from NGS data was caused by the biased haplotype coverage. HAPDeNovo can eliminate more than 99% false positive de novo calls with the help of 10X linked read sequencing.

Accessing HAPDeNovo fe8bcc2-foss-2018b-Python-3.6.6

To load the module for HAPDeNovo fe8bcc2-foss-2018b-Python-3.6.6 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load HAPDeNovo/fe8bcc2-foss-2018b-Python-3.6.6

BEAR Apps Version




The listed architectures consist of two part: OS-CPU.

  • BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
  • BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

More Information

For more information visit the HAPDeNovo website.


This version of HAPDeNovo has a direct dependency on: DeNovoGear/387354d-foss-2018b foss/2018b FreeBayes/1.2.0-foss-2018b GATK/3.8-0-Java-1.8 LongRanger/2.2.2 Python/3.6.6-foss-2018b SAMtools/1.9-foss-2018b tabix/0.2.6-GCCcore-7.3.0 Triodenovo/0.06-foss-2018b VCFtools/0.1.16-foss-2018b-Perl-5.28.0

Last modified on 26th July 2019