Works on Uno but not on Yun I found some code that works to transmit the required signal to an RX-2B RC receiver, the code works great from my Uno but when I tried to run it from my Yún nothing happens. 

The code has definitely uploaded as I tested with an LED and the pin is getting a HIGH voltage written to it. 

Does anyone have any idea what the issue might be? Code below.

Thanks.

/**
* Control Realtek RX2 (RX2 -G) RC Receiver with Arduino
*
* @author Mircea Diaconescu, Octomber 28, 2013
* @source https://github.com/dimircea/
* GPL v3 License
*   
 * Many cheap RC toys are based on TX2 / RX2 transmitter / receiver ICs.
 * This Arduino sketch allows to replace the TX2 based Remote Control with Arduino.
 * Just one single pin is used from the Arduino board.
 *   
 * Connect Arduino pin 10 to the solder point where the toy antenna is connected or         to the toy antenna cable.
 * One can replace pin 10 with other free digital pin available on the Arduino board.
     *
 * TX-2B/RX-2B datasheet: http://www.datasheetarchive.com/dl/Datasheet-    035/DSA0017137.pdf
 */

/** Functions (aka W1) - as defined by the IC datasheet */
#define COMMAND_ENDCODE         4
#define COMMAND_FORWARD        10
#define COMMAND_FORWARD_TURBO  16
#define COMMAND_TURBO          22
#define COMMAND_FORWARD_LEFT   28
#define COMMAND_FORWARD_RIGHT  34
#define COMMAND_BACKWARD       40
#define COMMAND_BACKWARD_RIGHT 46
#define COMMAND_BACKWARD_LEFT  52
#define COMMAND_LEFT           58
#define COMMAND_RIGHT          64

//output pins
#define ANTENNA_PIN 9

/** Initialize the Arduino data and pin */
void setup() {
 pinMode( ANTENNA_PIN, OUTPUT);
}

/** Loop code */
void loop() {
 // add here your commands to control the RX2 module...
 // for test purposes, here a continuous forward command is sent

 sendCommand( COMMAND_FORWARD);

}

/** Send command to the RX2 IC */
void sendCommand( int command) {
 int w1 = 0, w2 = 0;

 /** start code sequence 4 x W2, ~625Hz, Duty Cycle 75% */ 
 for ( w2 = 0; w2 &lt; 4; w2++) {
   digitalWrite( ANTENNA_PIN, HIGH);
   delayMicroseconds( 1200);
   digitalWrite( ANTENNA_PIN, LOW);
   delayMicroseconds( 400);
  }

 /** function code sequence, n x W1, ~1.25KHz, Duty Cycle 50% */
 for ( w1 = 0; w1 &lt; command; w1++) {
   digitalWrite( ANTENNA_PIN, HIGH);
   delayMicroseconds( 400);
   digitalWrite( ANTENNA_PIN, LOW);
   delayMicroseconds( 400);
 }
}
A Yun is like a Leonardo with a CPU running GNU/Linux at its side. If your sketch works with a Leonardo, it's likely to work with a Yun.

Uno has a different MCU and thus not every sketch will just work, especially those using the hardware serial. You'll have to convert them.