Reduces the computational time for pair-wise genome set comparisons by orders of magnitude. dRep sequentially applies an inaccurate estimation of genome distance and a slow but accurate measure of average nucleotide identity. It is easy to use, highly customizable, and parallelizable. The tool can perform rapid pairwise genomic comparisons (without de-replication) to enable visualization of the degree of similarity among groups of similar genomes.

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1 user review

Matt Olm's avatar image

Matt Olm

Great

dRep forum

No open topic.

dRep versioning

No versioning.

dRep classification

dRep specifications

Software type:
Package
Restrictions to use:
None
Programming languages:
Python
Version:
0.3.4
Requirements:
Mash, Nucmer, CheckM, Prodigal, gANI (aka CalculateANI), Centrifuge
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Stability:
Stable
Issue URL:
https://github.com/MrOlm/drep/issues

dRep support

Documentation

Maintainer

Credits

Publications

Funding source(s)

Supported by the Sloan Foundation (grant number: G 2012-10-05), the National Institutes of Health (NIH; award reference number 5R01-AI-092531) and by the National Science Foundation Graduate Research Fellowship under Grant No. DGE 1106400.

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