error: $ operator is invalid for atomic vectors

In other cases, a method errors with reasons beyond our control. a parameter that is outside the allowed range). These are sometimes easy to resolve (e.g. Now if you would rerun a method, you will normally still get an error message, but one produced by the methods themselves. It will now print the error out that the method produced, could you try to reinstall it (including its dependencies) dependencies=TRUE) ? It is important that also its dependencies are upgraded. I pushed a fix to dynverse/dynwrap to resolve this. However, we captured these errors incorrectly, and because of that you got this strange error Error: $ operator is invalid for atomic vectors. This error message originated from an error within the wrappers of the TI methods. Model <- infer_trajectory(dataset, first(methods_selected))Įrror: $ operator is invalid for atomic vectors Methods_selected <- guidelines$methods_selected Guidelines <- dynguidelines::guidelines(answers = answers) #Reproduces the guidelines as created in the shiny app #Adding prior information to the dataset (PAGA needs it to run)ĭataset <- add_prior_information(dataset, start_id = 'arc1_CAAATCACAAGC') Prior_information = c('start_id', 'end_id', 'end_n', 'start_n', 'groups_n', 'features_id'), #Create a dyno dataset with wrap_expressionĭataset <- wrap_expression(counts = counts, expression = exp)Īnswers <- dynguidelines::answer_questions( Any insights on why this is happening? Thanks in advance! When trying to run PAGA, the following error pops out: $ operator is invalid for atomic vectors I've assigned cells IDs and genes as rownames and colnames. I've done the preprocessing to reshape de data to the required input format (counts and expression matrices with cells as rows and genes as columns). I've been trying to run Dyno so as to proceed to lineage inference from a public dataset.