Mehmet Ilyas Cosacak

Hi, I have one sample. It might have several cell types which we donot know. How can I generate a pseudotime from a mix of cell population that we donot...

The problem is that; most of the functions in monocle1 cannot be used in the new one. Try the following code; ``` HSMM

This is the model in Python/tensorflow (version 2.2 and 2.4.1) and Java TF2 (tensorflow-core-platform, version 0.3.1); the details of the model can be found : [here](https://www.tensorflow.org/tutorials/generative/dcgan) ``` import tensorflow as...

I am not sure if [this ](https://stackoverflow.com/questions/43001532/how-to-feed-boolean-placeholder-by-means-of-tensorflowinferenceinterface-java) could be a solution. ``` public void feed(String inputName, boolean[] src, long... dims) { byte[] b = new byte[src.length]; for (int i =...

Thanks for the explanation, now I could understand the logic of **`feed`**, thus one can feed several parameters, separately. Coming from Python to Java, for a beginner is really difficult...

Unfortunately, I have not found how to feed in the Boolean in my model. Here is the Operations in the graph and I cannot find one that might need boolean...

Hi, when I try this: "cds_seur@preprocess_aux$prop_var_expl

and by the way; I am trying to use it from Seurat not Scanpy. basically as bellow: ``` # monocle3 function gene_annotation = as.data.frame(rownames(my.seurat.obj@assays$RNA@counts)) colnames(gene_annotation) = "gene_short_name" rownames(gene_annotation) = gene_annotation$gene_short_name...

here it is: ``` > cds class: cell_data_set dim: 19035 1328 metadata(2): cds_version citations assays(1): counts rownames(19035): fgfr1op2 znf1114 ... CABZ01113815.1 CABZ01090361.1 rowData names(1): gene_short_name colnames(1328): her.les_AAACCCACACTCATAG her.les_AAACGAAAGTAACGAT ... her.nai_TTTGGAGAGAGGGTGG...

found the solution here: [2833](https://github.com/satijalab/seurat/issues/2833). Almost same, except I skipped adding; `cds_from_seurat@preprocess_aux` steps.