目前有多種科伊科伊語的正字法方案,現代以《科伊科伊語詞典》(A Khoekhoegowab dictionary,Haacke 2000)的正字法方案為準。輔音字母b d g僅用於聲調為低聲調旋律的詞語,p t k則用於高音調詞語。W僅用於元音之間,也可以為b / p所代替。通過這種方式,這種正字法不使用音調記號。
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