ramabit

SAM to VCF/BCF:

samtools view -Sb file.sam > file.bam
samtools mpileup -E -uf reference.fa file.bam > file.mpileup

bcftools view -cg file.mpileup > file.vcf
bcftools view -bcg file.mpileup > file.bcf


Using tabix and bgzip:

ramabit

// Make a custom Gson instance, with a custom TypeAdapter for each wrapper object.
// In this instance we only have RealmList<RealmInt> as a a wrapper for RealmList<Integer>
Type token = new TypeToken<RealmList<RealmInt>>(){}.getType();
Gson gson = new GsonBuilder()
        .setExclusionStrategies(new ExclusionStrategy() {
            @Override
            public boolean shouldSkipField(FieldAttributes f) {
                return f.getDeclaringClass().equals(RealmObject.class);
            }

ramabit

/**
 * Start Download
 */
public void startDownload(String link, String filename) {
    Environment.getExternalStoragePublicDirectory(Environment.DIRECTORY_DOWNLOADS).mkdirs();
    
    DownloadManager mManager = (DownloadManager) getSystemService(Context.DOWNLOAD_SERVICE);
    DownloadManager.Request mRqRequest = new DownloadManager.Request(Uri.parse(link));
  
    mRqRequest.setDescription("Download file...");

ramabit

String url = " ... "; // some real url from where you want to download
DownloadManager dm = (DownloadManager) getContext().getSystemService(Context.DOWNLOAD_SERVICE);
DownloadManager.Request request = new DownloadManager.Request(Uri.parse(url));
dm.enqueue(request);

ramabit

// Java Hello World
public class HelloWorldExample
{
  public static void main(String[] args)
  {
    System.out.println("Hello World!");
  }
}

## Python Hello World

ramabit

//get phone number
TelephonyManager tm = (TelephonyManager)getSystemService(Context.TELEPHONY_SERVICE);  
String imei = tm.getDeviceId();  
String tel = tm.getLine1Number();

<uses-permission android:name="android.permission.READ_PHONE_STATE"/>   

ramabit

Button button = (Button) findViewById(R.id.button);
Toolbar toolbar = (Toolbar) findViewById(R.id.myToolbar);
 
final WebView webView = (WebView) findViewById(R.id.webView);
//Set links to show in webview not open in another program.
webView.setWebViewClient(new WebViewClient());

webView.getSettings().setJavaScriptEnabled(true);
String url = "http://www.alexhedley.com/form.asp";
webView.loadUrl(url);

ramabit

package amigosecreto.hp.example.com.db;

/**
 * Created by HP on 17/06/2015.
 */
import android.content.Context;
import android.database.sqlite.SQLiteDatabase;
import android.database.sqlite.SQLiteOpenHelper;
import android.util.Log;