I am trying to find the most significant altered genes and I was thinking of using only 1 tool for significance test which is MutSigCV instead of MutSigCV for mutation data and GISTIC for CNV data. I know that MutSigCV works with short indels but can I merge my CNV segmented data in the MAF file (Divide each long CNV into regions) and input them to MutSigCV or this wouldn't work? Can MutSigCV work with long insertions or deletions? What is the maximum indel length that MutSigCV can operate on?
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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...
