using FUNNEL for single cell data

[qvhaelen]

Hello,

I have another quick question regarding the use of the method FUNNEl. Is the algorithm suitable for single cell data ( analysis is the study of transcriptomics at the single cell level.)?

thank you

best regards

Quentin

[yunzhang813]

Hi Quentin, Regarding to the single cell RNA-seq data, we have not tested it on single cell gene expressions yet. The functional data analysis techniques we employed in FUNNEL (e.g. fPCA; fRegression) and the data transformation techniques (i.e., turn fRegression into multivariate regression via covariance matrix decomposition) depends on the normality assumption. So if the single cell expression data is too far from being “normal”, you cannot directly apply our method. In principle, it should be doable to find a data transformation that matches the log-likelihood function of the single cell data distribution and the multivariate log-likelihood function. Best, Yun From: qvhaelen <[email protected]> Reply-To: yunzhang813/FUNNEL-GSEA-R-Package <[email protected]> Date: Wednesday, September 26, 2018 at 4:39 AM To: yunzhang813/FUNNEL-GSEA-R-Package <[email protected]> Cc: Subscribed <[email protected]> Subject: [yunzhang813/FUNNEL-GSEA-R-Package] using FUNNEL for single cell data (#3) Hello, I have another quick question regarding the use of the method FUNNEl. Is the algorithm suitable for single cell data ( analysis is the study of transcriptomics at the single cell level.)? thank you best regards Quentin — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub<#3>, or mute the thread<https://github.com/notifications/unsubscribe-auth/ANi8MuIMLpkMzoGlv4isIopinWTYljM0ks5ue2dkgaJpZM4W6d18>.