io.github.msdk:msdk-all

A java library for the development of mass spectrometry-related algorithms.

License	GNU Lesser General Public License (LGPL) 2.1 Eclipse Public License (EPL) 1.0
GroupId	io.github.msdk
ArtifactId	msdk-all
Last Version	0.0.27
Release Date	Jul 28, 2019
Type	jar
Description	A java library for the development of mass spectrometry-related algorithms.

Download msdk-all

Filename	Size
msdk-all-0.0.27.pom
msdk-all-0.0.27.jar	1 KB

How to add to project

Apache Maven

<!-- https://jarcasting.com/artifacts/io.github.msdk/msdk-all/ -->
<dependency>
    <groupId>io.github.msdk</groupId>
    <artifactId>msdk-all</artifactId>
    <version>0.0.27</version>
</dependency>

Gradle Groovy

// https://jarcasting.com/artifacts/io.github.msdk/msdk-all/
implementation 'io.github.msdk:msdk-all:0.0.27'

Gradle Kotlin

// https://jarcasting.com/artifacts/io.github.msdk/msdk-all/
implementation ("io.github.msdk:msdk-all:0.0.27")

Apache Buildr

'io.github.msdk:msdk-all:jar:0.0.27'

Apache Ivy

<dependency org="io.github.msdk" name="msdk-all" rev="0.0.27">
  <artifact name="msdk-all" type="jar" />
</dependency>

Groovy Grape

@Grapes(
@Grab(group='io.github.msdk', module='msdk-all', version='0.0.27')
)

Scala SBT

libraryDependencies += "io.github.msdk" % "msdk-all" % "0.0.27"

Leiningen

[io.github.msdk/msdk-all "0.0.27"]

Dependencies

compile (42)

Group / Artifact	Type	Version
io.github.msdk : msdk-datamodel	jar	0.0.27
io.github.msdk : msdk-io-fileimport	jar	0.0.27
io.github.msdk : msdk-io-filetypedetection	jar	0.0.27
io.github.msdk : msdk-io-mzdata	jar	0.0.27
io.github.msdk : msdk-io-mzdb	jar	0.0.27
io.github.msdk : msdk-io-mzml	jar	0.0.27
io.github.msdk : msdk-io-mztab	jar	0.0.27
io.github.msdk : msdk-io-mzxml	jar	0.0.27
io.github.msdk : msdk-io-nativeformats	jar	0.0.27
io.github.msdk : msdk-io-netcdf	jar	0.0.27
io.github.msdk : msdk-io-txt	jar	0.0.27
io.github.msdk : msdk-io-chromatof	jar	0.0.27
io.github.msdk : msdk-io-mgf	jar	0.0.27
io.github.msdk : msdk-io-msp	jar	0.0.27
io.github.msdk : msdk-rawdata-filters	jar	0.0.27
io.github.msdk : msdk-rawdata-baselinecorrection	jar	0.0.27
io.github.msdk : msdk-spectra-centroiding	jar	0.0.27
io.github.msdk : msdk-spectra-peakinvestigator	jar	0.0.27
io.github.msdk : msdk-spectra-centroidprofiledetection	jar	0.0.27
io.github.msdk : msdk-spectra-splash	jar	0.0.27
io.github.msdk : msdk-db-mona	jar	0.0.27
io.github.msdk : msdk-db-kegg	jar	0.0.27
io.github.msdk : msdk-db-gnps	jar	0.0.27
io.github.msdk : msdk-id-sirius	jar	0.0.27
io.github.msdk : msdk-id-metfrag	jar	0.0.27
io.github.msdk : msdk-id-localdatabase	jar	0.0.27
io.github.msdk : msdk-alignment-joinaligner	jar	0.0.27
io.github.msdk : msdk-alignment-ransac	jar	0.0.27
io.github.msdk : msdk-normalization-stdcompound	jar	0.0.27
io.github.msdk : msdk-isotopes-isotopegrouper	jar	0.0.27
io.github.msdk : msdk-isotopes-isotopepattern	jar	0.0.27
io.github.msdk : msdk-spectra-similarity	jar	0.0.27
io.github.msdk : msdk-featuredetection-chromatogrambuilder	jar	0.0.27
io.github.msdk : msdk-featuredetection-targeted	jar	0.0.27
io.github.msdk : msdk-featuredetection-gridmass	jar	0.0.27
io.github.msdk : msdk-featuredetection-msms	jar	0.0.27
io.github.msdk : msdk-featuredetection-srm	jar	0.0.27
io.github.msdk : msdk-featuredetection-openms	jar	0.0.27
io.github.msdk : msdk-featuredetection-adap3d	jar	0.0.27
org.slf4j : slf4j-api	jar	1.7.26
com.google.code.findbugs : jsr305	jar	3.0.2
com.google.guava : guava	jar	27.1-jre

test (5)

Group / Artifact	Type	Version
junit : junit	jar	4.12
org.mockito : mockito-core	jar	2.27.0
org.hamcrest : hamcrest-library	jar	1.3
com.github.stefanbirkner : system-rules	jar	1.16.1
org.slf4j : slf4j-simple	jar	1.7.26

Project Modules

There are no modules declared in this project.

About MSDK

Mass Spectrometry Development Kit (MSDK) is a Java library of algorithms for processing mass spectrometry data. The goals of the library are to provide a flexible data model with Java interfaces for mass-spectrometry related objects (including raw spectra, processed data sets, identification results etc.) and to integrate the existing algorithms that are currently scattered around various Java-based graphical tools.

Java version

MSDK requires Java runtime (JRE) version 8 or newer.

Usage

API

Please see the complete MSDK API.

Maven artifacts

MSDK jars are automatically deployed to Maven Central. In order to use MSDK, simply add the following dependency to your pom.xml:

 <dependency>
    <groupId>io.github.msdk</groupId>
    <artifactId>msdk-all</artifactId>
    <version>0.0.27</version>
 </dependency>

Development

Tutorial

Please read our brief tutorial on how to contribute new code to MSDK.

Code style

• We use the Google Java Style Guide (https://github.com/google/styleguide)
• You can use the eclipse-java-google-style.xml file to automatically format your code in the Eclipse IDE
• Please write JavaDoc comments as full sentences, starting with a capital letter and ending with a period. Brevity is preferred (e.g., "Calculates standard deviation" instead of "This method calculates and returns a standard deviation of given set of numbers").

Logging

MSDK uses the SLF4J library for logging. This library can forward all logging calls to your favorite logging framework (java.util.logging, Apache log4j, or others). Please see SLF4J documentation for details.

Building

See the BUILD.md file

Mass Spectrometry Development Kit (MSDK)

MSDK is a collaborative project developing a Java library of algorithms for mass spectrometry data processing.

Versions

Version
0.0.27 Jul 28, 2019
0.0.26 Jul 28, 2019
0.0.25 Jul 28, 2019
0.0.24 Jul 28, 2019
0.0.23 Jul 27, 2019
0.0.22 Jul 27, 2019
0.0.21 May 5, 2019
0.0.20 May 5, 2019
0.0.19 Nov 30, 2018
0.0.18 Nov 29, 2018
0.0.17 Nov 16, 2018
0.0.16 Sep 19, 2018
0.0.15 Sep 17, 2018
0.0.14 Jul 19, 2018
0.0.13 Jul 3, 2018
0.0.12 Jun 26, 2018
0.0.11 Sep 19, 2017
0.0.10 Sep 14, 2017
0.0.9 Aug 27, 2017
0.0.8 Jun 18, 2017
0.0.7 Dec 8, 2016
0.0.6 May 25, 2016
0.0.5 Mar 20, 2016
0.0.4 Jan 24, 2016
0.0.3 Dec 30, 2015
0.0.2 Dec 14, 2015
0.0.1 Nov 24, 2015