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Welcome to the PALMO wiki!
PALMO (Platform for Analyzing Longitudinal Multi-omics data) is a platform for analyzing longitudinal data from bulk as well as single cell platform. It allows to identify inter-, intra-donor variations in genes over longitudinal time points. The analysis can be done on bulk expression dataset without known celltype information or single cell with celltype/user-defined groups. PALMO can work with any longitudinal data (at least 3 timepoints), including clinical data, bulk omics data, and single-cell omics data. Variance decomposition module in PALMO allows to reveal contributions by factors of interest to the total variance. PALMO allows to infer stable and variable features in each celltype (or user defined group) within each donor. It also identifies stable and variable features across the donors (including within celltype). PALMO helps to detect abnormal temporal behavior in longitudinal data. Further, PALMO allows to visualize multimodal omics data together in Circos plot. Longitudinal differential analysis (time as a continuous variable) can be performed using PALMO to decipher time-wise changes in gene expression within a celltype. The installation of PALMO and its application with several tutorials are given below.
General workflow and analysis schema of PALMO. It can work with longitudinal data obtained from bulk such as clinical, bulk RNAseq, proteomic or single cell dataset from scRNAseq, and scATACseq.