I have made a function for resizing image like JPEG/GIF/PNG with copyimageresample and PNG images still keep there transparency:
$myfile=$_FILES["youimage"];
function ismyimage($myfile) {
    if((($myfile["type"] == "image/gif") || ($myfile["type"] == "image/jpg") || ($myfile["type"] == "image/jpeg") || ($myfile["type"] == "image/png")) && ($myfile["size"] <= 2097152 /*2mb*/) ) return true; 
    else return false;
}
function upload_file($myfile) {         
    if(ismyimage($myfile)) {
        $information=getimagesize($myfile["tmp_name"]);
        $mywidth=$information[0];
        $myheight=$information[1];
        $newwidth=$mywidth;
        $newheight=$myheight;
        while(($newwidth > 600) || ($newheight > 400 )) {
            $newwidth = $newwidth-ceil($newwidth/100);
            $newheight = $newheight-ceil($newheight/100);
        } 
        $files=$myfile["name"];
        if($myfile["type"] == "image/gif") {
            $tmp=imagecreatetruecolor($newwidth,$newheight);
            $src=imagecreatefromgif($myfile["tmp_name"]);
            imagecopyresampled($tmp, $src, 0, 0, 0, 0, $newwidth, $newheight, $mywidth, $myheight);
            $con=imagegif($tmp, $files);
            imagedestroy($tmp);
            imagedestroy($src);
            if($con){
                return true;
            } else {
                return false;
            }
        } else if(($myfile["type"] == "image/jpg") || ($myfile["type"] == "image/jpeg") ) {
            $tmp=imagecreatetruecolor($newwidth,$newheight);
            $src=imagecreatefromjpeg($myfile["tmp_name"]); 
            imagecopyresampled($tmp, $src, 0, 0, 0, 0, $newwidth, $newheight, $mywidth, $myheight);
            $con=imagejpeg($tmp, $files);
            imagedestroy($tmp);
            imagedestroy($src);
            if($con) {  
                return true;
            } else {
                return false;
            }
        } else if($myfile["type"] == "image/png") {
            $tmp=imagecreatetruecolor($newwidth,$newheight);
            $src=imagecreatefrompng($myfile["tmp_name"]);
            imagealphablending($tmp, false);
            imagesavealpha($tmp,true);
            $transparent = imagecolorallocatealpha($tmp, 255, 255, 255, 127);
            imagefilledrectangle($tmp, 0, 0, $newwidth, $newheight, $transparent); 
            imagecopyresampled($tmp, $src, 0, 0, 0, 0, $newwidth, $newheight, $mywidth, $myheight);
            $con=imagepng($tmp, $files);
            imagedestroy($tmp);
            imagedestroy($src);
            if($con) {
                return true;
            } else {
                return false;
            }
        }   
    } else
          return false;
}