I would like to display or hide some markers when a user click on a checkbox. I'm using Gmaps.js and the code responsible for this is:
// Check if the user wants to display points of interest
$("#poi").click(function() {
    var poi_markers = [];
    if ($("#poi").is(':checked')) {
        // Get points of interest and display them on the map
        $.ajax({
            type: "POST",
            url: "/ajax/poi.php",
            dataType: "JSON",
            cache: false,
            success: function(data) {
                $.each(data, function(key, value) {
                    poi_marker = {
                        marker: {
                            lat: value.latitude,
                            lng: value.longitude,
                            icon: '/images/marker-sight.png',
                            infoWindow: {
                                content: value.name
                            }
                        }
                    }
                    poi_markers.push(poi_marker);
                });
                console.log(poi_markers);
                map.addMarkers(poi_markers);
            }
        });
    } else {
        map.removeMarkers(poi_markers);
    }
});
Sample JSON:
[{"name":"Biserica Neagra","latitude":"45.640981","longitude":"25.587723"}]
In Firebug I get this error: "uncaught exception: No latitude or longitude defined.".
What am I doing wrong?
The addMarkers() function takes an array of markers as a parameter. But you are giving it an array of objects with a marker property. They should be declared that way:
poi_marker = {
    lat: value.latitude,
    lng: value.longitude,
    infoWindow: {
        content: value.name
    }
}
The removeMarkers() function does not take any parameter because it removes all markers. It should be called that way:
map.removeMarkers();
For clarity, and since I think you'll figure out how to do this, I'll omit the Ajax part, and assume you have all your markers defined like this after collecting them:
var realMarkers = {},
    gMarkers = {
        bars: [
            {lat:"45.640981",lng:"25.587723",infoWindow:{content:"Irish Pub"}},
            {lat:"45.645911",lng:"25.582753",infoWindow:{content:"Beer King"}}
        ],
        transportation: [
            {lat:"45.645981",lng:"25.590723",infoWindow:{content:"Subway"}},
            {lat:"45.640981",lng:"25.583723",infoWindow:{content:"Train"}},
            {lat:"45.636981",lng:"25.580723",infoWindow:{content:"Airport"}}
        ]
    };
As you can see, I used an Object gMarkers where the g stands for Gmaps.js, because these markers are different from real Google Maps markers, which you'll need for this. The real markers will be stored in the realMarkers variable.
Since Gmaps.js does not provide a way to add/remove only some markers, I created 2 functions, which you can add to your code.
addMarkersOfType()
/* Takes the poi type as a parameter */
GMaps.prototype.addMarkersOfType = function (poi_type) {
    // clear markers of this type
    realMarkers[poi_type]=[];
    // for each Gmaps marker
    for(var i=0; i<gMarkers[poi_type].length; i++){
        // add the marker
        var marker = map.addMarker(gMarkers[poi_type][i]);
        // save it as real marker
        realMarkers[poi_type].push(marker);
    }
}
removeMarkersOfType()
/* Takes the poi type as a parameter */
GMaps.prototype.removeMarkersOfType = function (poi_type) {
    // for each real marker of this type
    for(var i=0; i<gMarkers[poi_type].length; i++){
        // remove the marker
        realMarkers[poi_type][i].setMap(null);
    }
    // clear markers of this type
    realMarkers[poi_type]=[];
}
$("#bar_poi").click(function() {
    if ($(this).is(':checked')) 
        map.addMarkersOfType("bars");
    else 
        map.removeMarkersOfType("bars");
});
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