Is there a separate browser for microRNAs visualization? It is small RNA-seq data
The miRNAs come from the genome and can be aligned to the genome, so I am not sure a separate browser is necessary.
Map you small RNA-seq data, get BAM files, convert BAM to bigWig and visualize on UCSC genome browser.
I have tried to visualize .tdf from bam as such in IGV/ UCSC browser but differences in two samples are hard to see nicely, even though there are significant differences in two samples. I am not getting the same quality visualization as I see with regular Chipseq/ RNAseq. The reason may be of there small size