Both: Dalmatian pelican; western cattle egret; Abdim’s and marabou storks; hamerkop; African spoonbill; glossy and Hadada ibises; Bernier’s teal; fulvous and white-faced whistling ducks; yellow-necked francolin; helmeted guinea fowl; black crake; blacksmith lapwing; helmeted guinea fowl European thick-knee; European thick-knee; Cape turtle dove; speckled pigeon; black-cheeked lovebird; Senegal, white-crested and violet turacos; African grey and Von der Decken’s hornbills; common hoopoe; amethyst, superb and golden-breasted starlings; Madagascar fody; village weaver; red-billed quelea; snowy crowned robin-chat; Sudan golden sparrow; yellow-crowned bishop; yellow-fronted canary
Antwerp
Jackass, macaroni, subantarctic gentoo and king penguins
Waldrapp
Caribbean flamingo
Bar-headed goose
Bataleur eagle; Eurasian black, Ruepell’s griffon, turkey and hooded vultures; crested and striated caracaras
Asian blue and Californian quails; Congo peafowl; crested wood and Madagascar partridges; Edward’s, Salvadori’s, Palawan peacock and golden pheasants; satyr tragopan; northern helmeted guinea fowl; yellow-knobbed curassow
Grey-winged trumpeter; sunbittern; western black-crowned crane
Black-winged stilt; Egyptian plover; Eurasian oystercatcher; ruff
Arabian chestnut-bellied sandgrouse
African olive pigeon; laughing and emerald doves; green-naped pheasant-pigeon; Mindanao bleeding-heart
Eurasian great grey, rock and Verreaux’s eagle, snowy, spectacled and burrowing owls
Tawny frogmouth
Blue-headed, Mexican green military and hyacinth macaws; Congo grey, swift and red-billed parrots; double yellow-headed and lilacine amazons; galah; red-flanked and Goldie’s lorikeets; kea; salmon-crested cockatoo
Blue-naped and speckled mousebirds
Hartlaub’s, Schalow’s, purple-crested and Fischer’s turacos
Abyssinian ground and trumpeter hornbills; green woodhoopoe; European bee-eater; lilac-breasted roller
Green aracari; Inca toucan; red-and-yellow barbet;
African silverbill; common and zebra waxbills; rosy and Brahminy starlings; Asian fairy blue bird; Bali and greater hill mynahs; blue-crowned laughing thrush; chestnut-backed ground thrush; blue-faced honey-eater; Braziian tanager; house bunting; Gouldian, cut-throat, double-barred, star, Timor zebra and long-tailed finches; greenfinch; red-whiskered bulbul; red-throated and tricolor parrotfinches; red-cowled and northern cardinals ; scaly-breasted munia; crested oropendola; diamond and red-browed firetails; Emei Shan liocichla; European goldfinch; painted bunting; red avadavat; red-billed leiothrix; red-cheeked cordon-bleu; ultramarine grosbeak; Vieillot’s weaver; white-backed magpie; white-faced shama;
Dvur Kralove
Common ostrich
Little grebe
Great white, spot-billed and pink-backed pelicans
Black-crowned night, purple and green-backed herons; little bittern; little egret; African open-billed, yellow-billed, saddle-billed and European white storks; Eurasian spoonbill; sacred and southern bald ibises
Greater and lesser flamingos
Blue-winged, greylag, northern spur-winged and Egyptian geese; ferruginous, Meller’s, Old World comb, South African black, yellow-billed and Maccoa ducks; Cape shoveler; Cape, marbled, Eurasian green-winged, red-billed and Hottentot teals; garganey; red-crested and South African pochards; South African shelduck
Martial eagle; secretary bird
Eastern crested, vulturine and Reichenow’s helmeted guinea fowl; harlequin quail
Blue, wattled and southern grey-crowned cranes; western Mediterranean purple swamphen
African jacana; blacksmith, masked and crowned lapwings
African and Bruce’s green pigeons; blue-headed wood, Madagascar turtle, Senegal laughing and Namaqua doves
Chestnut-bellied sand grouse
African spotted eagle owl
Blue-and-yellow macaw; grey, Kuhl’s brown-necked, Meyer’s, red-bellied and greater vasa parrots; Lilian’s, peach-faced and masked lovebirds
Black-faced and white-bellied go-away birds; Emin’s and great blue turacos; western plantain-eater
African pied, trumpeter, southern ground, red-billed, silvery-cheeked, western piping and eastern yellow-billed hornbills; blue-bellied and European rollers; northern carmine bee-eater
Bearded and red-and-yellow barbets
Black-headed, golden-backed, Layard’s black-headed, white-headed buffalo, rufous-tailed, vitelline masked and Cape weavers; Cape and chestnut sparrows; emerald, red-winged, wattled and long-tailed and purple glossy starlings; fire-crowned, southern red, Zanzibar and red bishops; magpie manikin; pin-tailed whydah; red-collared and yellow-mantled widowbirds; red-headed quelea; Upper Guinea bulbul; white-crowned robin-chat; white-necked raven; white-rumped seed-eater
Both zoos have good collections of birds, but vary in the types kept.
Antwerp has penguins and mousebirds has a better collection of raptors, owls and game birds and a more varied collection of perching birds.
Dvur Kralove has ostriches, grebes, a much better collection of waterfowl, herons and hornbills and their relatives.
I am voting for Antwerp, but only just.
saving the best (Twycross vs. Wuppertal( to the last 
!