Hello,

Following the cytofWorkflow2 tutorial I encountered a few bugs:

1. The url argument in

download.file(paste0(url, "/", fcs_filename), destfile = fcs_filename, mode = "wb")

is not specified.

url <- "http://imlspenticton.uzh.ch/robinson_lab/cytofWorkflow"

2. The naming of the downloaded files is not the same as defined in the PBMC_md table from Catalyst package. Therefore the following line is creating the next error:

fcs_raw <- read.flowSet(md$file_name, transformation = FALSE, truncate_max_range = FALSE)

3. The arguments for constructing a daFrame are in a different order then in the CATALYST documentation:

# Construct daFrame
daFrame(fcs_raw, md, panel)

# construct daFrame CATALYST documentation
(daF <- daFrame(PBMC_fs, PBMC_panel, PBMC_md))

4. The number of rows panel$fcs_colname and colnames(fcs_raw) is different and I get the next error when trying to

# Construct daFrame
daFrame(fcs_raw, md, panel)

Kind regards,

Oliver