Problem with addMonocleTrajectory( ArchRProj = NULL, name = "Trajectory", useGroups = NULL, groupBy = "Clusters", monocleCDS = NULL, force = FALSE )

[A-legac45]

Hello,

I am trying to use this fonction but NA are return in the trajectory_monocle column I chek and cell names are identic between archr and cdsmonocle I do not see where is the problem.

test <- addMonocleTrajectory(

• ArchRProj = project_Peaks_RES0.9_subcluster,
• name = "Trajectory_monocle",
• useGroups = c("C3", "C4", "C5","C6","C7"),
• groupBy = "Clusters.res_ATAC_new0.6",
• monocleCDS = cds_filtered,
• force = FALSE
• )

thanks

@jgranja24 @jeffmgranja @keyuxi @rcorces

[rcorces]

Hi @A-legac45! Thanks for using ArchR! Lately, it has been very challenging for me to keep up with maintenance of this package and all of my other responsibilities as a PI. I have not been responding to issue posts and I have not been pushing updates to the software. We are actively searching to hire a computational biologist to continue to develop and maintain ArchR and related tools. If you know someone who might be a good fit, please let us know! In the meantime, your issue will likely go without a reply. Most issues with ArchR right not relate to compatibility. Try reverting to R 4.1 and Bioconductor 3.15. Newer versions of Seurat and Matrix also are causing issues. Sorry for not being able to provide active support for this package at this time.