/
integration-config-ldvae.json
73 lines (73 loc) · 1.82 KB
/
integration-config-ldvae.json
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{
"global_default" :{
"covariate" : ["batch"]
},
"TabulaDropletLabelled":{
"default": {
"method" : ["scVI", "ldvae"],
"transform" : ["counts"],
"n_features" : [5000],
"dims" : [10],
"knn" : [5],
"dist": [0.1],
"neighbors": [500]
}
},
"Homo_sapiens":{
"default": {
"method" : ["scVI", "ldvae"],
"transform" : ["counts"],
"n_features" : [5000],
"dims" : [10],
"knn" : [5],
"dist": [0.1],
"neighbors": [500]
}
},
"Mus_musculus":{
"default": {
"method" : ["scVI", "ldvae"],
"transform" : ["counts"],
"n_features" : [5000],
"dims" : [10],
"knn" : [5],
"dist": [0.1],
"neighbors": [500]
}
},
"onlyWELL":{
"default": {
"transform" : ["counts"],
"method" : ["scVI", "ldvae"],
"n_features" : [500],
"covariate" : ["batch"],
"dims" : [4],
"dist" : [0.1],
"knn" : [7],
"neighbors": [30]
}
},
"universe":{
"default": {
"transform" : ["counts"],
"method" : ["scVI"],
"n_features" : [2000],
"dims" : [30],
"knn": [7],
"dist" : [0.1],
"neighbors" : [100]
}
},
"celltype_subset":{
"default": {
"transform" : ["counts"],
"method" : ["scVI"],
"partition" : ["cones", "hc", "rgc", "amacrine", "mullerglia", "bipolar", "rods"],
"n_features" : [ 1000, 2000],
"dims" : [4,6,10,30],
"knn" : [7, 10, 15],
"dist" : [0.1],
"neighbors" : [30]
}
}
}