tools for array data and NGS data
Hello,
Are there any tools/software programs which can load NGS data and SNP array data at the same time.
So I can see if there is on a genomic position a point mutation (found with NGS) as well as there is a large deletion (found with array) for diagnostics of mental retardation. In one screen.
Thanks!!
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Have you considered just calling the variants with each dataset and just loading the resulting VCF files simultaneously? That's an easy enough solution, unless you want to view the unprocessed data simultaneously.
Both data are processed, now the goal is to find a viewer, so you can see for every genomic position the array and NGS variants in one screen. For NGS the variants are filtered in Cartagenia. I have Cartagenia exports, these are excel worksheets. And for the array data I have .csv files. Are there any possibilities with that? or do I need an other files?
And which program would be suitable?
IGV or IGB are the common choices (in fact, IGB can directly load some formats used directly by tiling arrays), though they take standard formats, not some random format made by Cartegenia. If their programs don't allow output in standard VCF format then I can't recommend using them.
is there an article available that shows that this combining of data is done before for diagnostics?
So i can compare their method en routing with mine?
Likely, though I don't know of any off-hand.
because i have been searching. but i can't find any articles where it's combined for diagnostics, only separate