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Offline Tools or packages (prefer R) for miRNA-seq time series counts data analysis ?

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  • Offline Tools or packages (prefer R) for miRNA-seq time series counts data analysis ?

    Hello all,

    anyone could advise me to analyze my time series data sets of miRNA-seq ?? I have counts from HTS-seq counts after mapping. I have 4 time (T) points with 2 biological conditions (BC) and each have their replicates (r) but not equal replicates for all 2 conditions in diff time points. I dont know how to analysis and deal with this kind of data ?? I mean, sure i would like to know DE miRNAs among them in different point. But initially i would like to see some short of preliminary analysis of my data ???

    May i use 2 anova test ??? but i am not sure because, anova takes means into account and this case its not true because i have gene (miRNAs) counts. is it correct ???

    Also looking forward, some R packages (bioconductor or any statistical tool, but prefer R) to detect DE miRNAs gene over time course.

    waiting for kind guide line.
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