@include "_sc_rna_analyzer_stages.mro"

call RUN_TSNE(
    matrix_h5 = "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G172/10X_TCPO_premRNA_Transcript/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u025ec275c3/files/preprocessed_matrix_h5.h5",
    pca_h5 = "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G172/10X_TCPO_premRNA_Transcript/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u025ec28591/files/pca_h5.h5",
    skip = false,
    random_seed = null,
    perplexity = null,
    input_pcs = null,
    max_dims = null,
    max_iter = null,
    stop_lying_iter = null,
    mom_switch_iter = null,
    theta = null,
    is_antibody_only = false,
)