biology/snpeff 5.1 DragonFly

Genetic variant annotation and effect prediction toolbox

System: DragonFly
Repository: DPorts
Maintainer: [email protected] (as in FreeBSD)
License: MIT
Categories: biology, java, python
Package size: 53120.3 KiB, 82203.7 KiB installed

Description

Genetic variant annotation and functional effect prediction toolbox. It annotates and predicts the effects of genetic variants on genes and proteins (such as amino acid changes).

Features:

Supports over 38,000 genomes
Standard ANN annotation format
Cancer variants analysis
GATK compatible (-o gatk)
HGVS notation
Sequence Ontology standardized terms

Install

Binary package:

pkg install snpeff

From DPorts:

cd /usr/dports/biology/snpeff && make install clean

Dependency graph

Ports that need it on the left, what it needs to run on the right; at most 8 of each. "Dependencies" below lists them all.

graph LR
  me["biology/snpeff"]
  me --> d0["java/openjdk17"]
  me --> d1["lang/python311"]
  me --> d2["shells/bash"]
  classDef this fill:#ab2b28,color:#ffffff,stroke:#ab2b28
  class me this

Dependencies

Run dependencies 3

No port depends on this one.