I am analyzing paired-end sequences I obtained from phage display where the inserted fragment is cDNA. Since there are three frames and the chunk of cDNA was inserted randomly, most of the sequences I expect to be out of frame. So, I need to get the frame data.
I have run TopHat to get the BAM files, which nicely shows chromosomal alignments. But does anyone have ideas about how to convert chromosomal position to nucleotide positions or protein sequence?
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Spatial biology is an exciting field that encompasses a wide range of techniques and technologies aimed at mapping the organization and interactions of various biomolecules in their native environments. As this area of research progresses, new tools and methodologies are being introduced, accompanied by efforts to establish benchmarking standards and drive technological innovation.
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