IS any one using Bioperl Coordinate Genemap to Map between cDNA coordiantes vs Gene(Genome) Coordinates? Can it be done in that module and any example ? Thanks,
-
-
I used that module once and it is designed to do things exactly like you want. I was doing something slightly different, taking genomic coordinates of SNPs, converting to CDS then to codon to determine the SNP was synonymous or not. The documentation is very sketchy, and I never got it to work entirely. It would work if the SNP was in the first exon but not if it was in a later exon. I can't say for sure whether this was due to a bug in the module or if I had not implemented it properly. Since I had only a small number of SNPs to check I soon gave up and "did it by hand".
I hope I'm not discouraging you from trying this module. As I said it is designed to do exactly what you want. If you can work with it that would be great.
-
Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?
Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating...10-14-2026, 09:55 AM -
Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.
We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing...
Comment