dDocent specifications

Unique identifier:
OMICS_14821
Interface:
Command line interface
Input data:
Demultiplexed forward and paired-end FASTQ files for every individual in the analysis (flRAD data only).
Output data:
The raw SNP and Indel calls as well as filtered SNP calls in VCF format.
Operating system:
Unix/Linux
License:
MIT License
Version:
2.2.7
Requirements:
CMake, FreeBayes, vcflib, Trimmomatic, mawk, bwa, samtools, VCFtools, Rainbow, gnuplot, seqtk, cd-hit, bedtools, bamtools, GNU-parallel, PEAR read merger, Java
Software type:
Pipeline/Workflow
Restrictions to use:
None
Input format:
FASTQ
Output format:
VCF
Programming languages:
Shell (Bash)
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

versioning

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dDocent distribution

download

dDocent support

Documentation

Maintainer

  • Jonathan Puritz <>

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Publications

Institution(s)

Marine Genomics Laboratory, Harte Research Institute, Texas A&M University-Corpus Christi, Corpus Christi, TX, USA

Funding source(s)

This work was supported by the National Marine Fisheries Service under Saltonstall-Kennedy Award NA10NMF4270199, by the MARFIN Award NA12NMF4330093, and by the Cooperative Research Program Award NA12NMF4540082.

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Calvi Caswara's avatar image Calvi Caswara's country flag

Calvi Caswara

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works fine, is quite fast and easy to install, good documentation

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