Update Scissor.R with 'data' Layer for Seurat V5

[yifanfu01]

Hi sunduanchen,
Due to the upgrade of Seurat, the way to get data matrix has changed.
Guys met error:

infos1 <- Scissor(bulk_dataset, sc_dataset, phenotype, alpha = 0.05, family = "cox", Save_file = 'Scissor_LUAD_survival.RData')
Error in as.matrix(sc_dataset@assays$RNA@data) :
no slot of name"data" for this object of class "Assay5"

as mentioned in #59
Here, I fixed the problem and hope it will help.

[sunduanchen]

Thanks a bunch. Best, Duanchen

…

On Sat, 11 May 2024 at 02:01, Jacob Yifan FU ***@***.***> wrote: Hi sunduanchen, Due to the upgrade of Seurat, the way to get data matrix has changed. Here, I fixed the problem and hope it will help. ------------------------------ You can view, comment on, or merge this pull request online at: #62 Commit Summary - dee4a2e <dee4a2e> Update Scissor.R with 'data' Layer File Changes (1 file <https://github.com/sunduanchen/Scissor/pull/62/files>) - *M* R/Scissor.R <https://github.com/sunduanchen/Scissor/pull/62/files#diff-98f95c53a59405f9354e763ffc5d5bcc4ece25c9cc1d91996f6fd3a3706ae407> (2) Patch Links: - https://github.com/sunduanchen/Scissor/pull/62.patch - https://github.com/sunduanchen/Scissor/pull/62.diff — Reply to this email directly, view it on GitHub <#62>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AEYQWDFPG52NCYS2NEHV53TZBUDN5AVCNFSM6AAAAABHRAYZY2VHI2DSMVQWIX3LMV43ASLTON2WKOZSGI4TAMJXGQ4TANQ> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>