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.
T1 T2 T3 T4
BC1 BC2 BC1 BC2 BC1 BC2 BC1 BC2
r1 r1 r1 r1 r1 r1 r1 r1
r2 r2 r2 r2 r2 r2 r2 r2
r3 r3 r3 r3 r3 r3 r3 r3
r4 r4 r4 r4 r4 r4
r5 r5 r5 r5
The above table shows my data-sets (r referred to replicates) and i dont know how to analysis and what ?? 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.
Thank you once again for your time and waiting for kind guide line.