BioSciTools

1. BioSciTools Description

BioSciTools: (Bioinformatics Science Tools), a desktop program developed based on Java 11, aims to make new exploration and contribution to the development of bioinformatics, and realize data analysis and visualization in the fields of sequence analysis, multimomics (transcriptomics, genomics, protein omics, metabonomics, single cell), microbiology, clinical, etc. The program inherits the excellent interactive components, perfect analysis function and beautiful operation interface of HiPlot (https://hiplot.com.cn), which I developed based VUE.js and Node.js, etc.

2. Meta Information

BioSciTools Source Code Github Repository: https://github.com/BioSciTools/BioSciTools

BioSciTools Release Repository: https://github.com/BioSciTool/BioSciTools.github.io

BioSciTools Release Website: https://bioscitools.github.io

BioSciTools-v1.1.3 Download (AliDrive): https://www.aliyundrive.com/s/Defuhf7FVGw

BioSciTools-v1.1.3 Download (Github): https://github.com/BioSciTools/BioSciTools.github.io/releases/download/v1.1.3/BioSciTools-v1.1.3.exe

3. BioSciTools Usage

Download new version from BioSciTools Release Website or BioSciTools Release Repository:.

No need: Java 11.0 environment and R 4.20 language environment, and the sample files are stored in the examples directory.

4. BioSciTools Develop

<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">
    <modelVersion>4.0.0</modelVersion>
    <groupId>benbenmiao</groupId>
    <artifactId>BioSciTools</artifactId>
    <version>0.0.1-SNAPSHOT</version>
    <properties>
        <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
        <maven.compiler.source>11</maven.compiler.source>
        <maven.compiler.target>11</maven.compiler.target>
    </properties>
    <dependencies>
        <dependency>
            <groupId>org.openjfx</groupId>
            <artifactId>javafx-controls</artifactId>
            <version>18</version>
        </dependency>
        <dependency>
            <groupId>org.openjfx</groupId>
            <artifactId>javafx-fxml</artifactId>
            <version>18</version>
        </dependency>
        <dependency>
    		<groupId>org.openjfx</groupId>
    		<artifactId>javafx-web</artifactId>
    		<version>18</version>
		</dependency>
		<dependency>
		    <groupId>org.openjfx</groupId>
		    <artifactId>javafx-media</artifactId>
		    <version>18</version>
		</dependency>
		<dependency>
		    <groupId>org.openjfx</groupId>
		    <artifactId>javafx-swing</artifactId>
		    <version>18</version>
		</dependency>
        <dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-core</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-structure</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-ontology</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-ws</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-structure-gui</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-aa-prop</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-survival</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-protein-disorder</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-genome</artifactId>
		    <version>6.0.5</version>
		</dependency>
		<dependency>
		    <groupId>org.biojava</groupId>
		    <artifactId>biojava-modfinder</artifactId>
		    <version>6.0.5</version>
		</dependency>
      	<dependency>
    		<groupId>org.rosuda.REngine</groupId>
   			<artifactId>Rserve</artifactId>
    		<version>1.8.1</version>
		</dependency>
		<dependency>
    		<groupId>org.rosuda.REngine</groupId>
    		<artifactId>REngine</artifactId>
    		<version>2.1.0</version>
		</dependency>
    </dependencies>
    <build>
        <plugins>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-compiler-plugin</artifactId>
                <version>3.8.0</version>
                <configuration>
                	<!-- mvn clean install -->
                	<!-- mvn clean package -->
                    <release>11</release>
                </configuration>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-assembly-plugin</artifactId>
                <version>3.2.0</version>
                <!-- mvn clean install -->
                <executions>
                    <execution>
                        <id>make-assembly</id>
                        <phase>package</phase>
                        <goals>
                            <goal>single</goal>
                        </goals>
                    </execution>
                </executions>
                <configuration>
                    <archive>
                        <manifest>
                            <mainClass>benbenmiao.BioSciTools.AppLaunch</mainClass>
                        </manifest>
                    </archive>
                    <descriptorRefs>
                        <descriptorRef>jar-with-dependencies</descriptorRef>
                    </descriptorRefs>
                </configuration>
            </plugin>
            <plugin>
                <groupId>org.openjfx</groupId>
			    <artifactId>javafx-maven-plugin</artifactId>
			    <version>0.0.8</version>
			    <configuration>
			    	<!-- mvn clean javafx:run -->
			        <mainClass>benbenmiao.BioSciTools.App</mainClass>
			    </configuration>
            </plugin>
        </plugins>
    </build>
</project>