94ec55bd5c13d75a590f82d41ff66e422bc11b1d,scanpy/tools/tsne.py,,tsne,#Any#Any#Any#,26

Before Change

        if params["n_pcs"] > 0 and adata.X.shape[1] > params["n_pcs"]:
            sett.m(0, "preprocess using PCA with", params["n_pcs"], "PCs")
            sett.m(0, "--> avoid this by setting n_pcs = 0")
            dpca = pca(adata, n_comps=params["n_pcs"])
            X = dpca["Y"]
        else:
            X = adata.X
    // params for sklearn

After Change

    sett.m(0,"compute tSNE")
    sett.m(0,"... mind that this is not deterministic!")
    // preprocessing by PCA
    if "X_pca" in adata and adata["X_pca"].shape[1] > n_pcs:
        X = adata["X_pca"]
        sett.m(0, "using X_pca for tSNE")
    else:

Instances