vepnormalizer

License	MIT
Categories	ORM Data
GroupId	com.github.biopet
ArtifactId	vepnormalizer_2.11
Last Version	0.1
Release Date	Feb 27, 2018
Type	jar
Description	vepnormalizer vepnormalizer
Project URL	https://github.com/biopet/vepnormalizer
Project Organization	Biopet
Source Code Management	https://github.com/biopet/vepnormalizer

Download vepnormalizer_2.11

Filename	Size
vepnormalizer_2.11-0.1.pom
vepnormalizer_2.11-0.1.jar	47 KB
vepnormalizer_2.11-0.1-sources.jar	6 KB
vepnormalizer_2.11-0.1-javadoc.jar	359 KB

How to add to project

Apache Maven

<!-- https://jarcasting.com/artifacts/com.github.biopet/vepnormalizer_2.11/ -->
<dependency>
    <groupId>com.github.biopet</groupId>
    <artifactId>vepnormalizer_2.11</artifactId>
    <version>0.1</version>
</dependency>

Gradle Groovy

// https://jarcasting.com/artifacts/com.github.biopet/vepnormalizer_2.11/
implementation 'com.github.biopet:vepnormalizer_2.11:0.1'

Gradle Kotlin

// https://jarcasting.com/artifacts/com.github.biopet/vepnormalizer_2.11/
implementation ("com.github.biopet:vepnormalizer_2.11:0.1")

Apache Buildr

'com.github.biopet:vepnormalizer_2.11:jar:0.1'

Apache Ivy

<dependency org="com.github.biopet" name="vepnormalizer_2.11" rev="0.1">
  <artifact name="vepnormalizer_2.11" type="jar" />
</dependency>

Groovy Grape

@Grapes(
@Grab(group='com.github.biopet', module='vepnormalizer_2.11', version='0.1')
)

Scala SBT

libraryDependencies += "com.github.biopet" % "vepnormalizer_2.11" % "0.1"

Leiningen

[com.github.biopet/vepnormalizer_2.11 "0.1"]

Dependencies

compile (4)

Group / Artifact	Type	Version
org.scala-lang : scala-library	jar	2.11.11
com.github.biopet : tool-utils_2.11	jar	0.3
com.github.biopet : tool-test-utils_2.11	jar	0.2.1
com.github.biopet : ngs-utils_2.11	jar	0.3

Project Modules

There are no modules declared in this project.

VepNormalizer

VepNormalizer modifies a VCF file annotated with the Variant Effect Predictor (VEP). Since the VEP does not use INFO fields to annotate, but rather puts all its annotations in one big string inside a "CSQ" INFO tag it is necessary to normalize it.

Documentation

For documentation and manuals visit our github.io page.

About

VepNormalizer is part of BIOPET tool suite that is developed at LUMC by the SASC team. Each tool in the BIOPET tool suite is meant to offer a standalone function that can be used to perform a dedicate data analysis task or added as part of a pipeline, for example the SASC team's biowdl pipelines.

All tools in the BIOPET tool suite are Free/Libre and Open Source Software.

Contact

For any question related to VepNormalizer, please use the github issue tracker or contact the SASC team directly at: [email protected].

Biopet

Versions

Version
0.1 Feb 27, 2018