Question: Processing Gff3 File Of Variants
0
PaulW • 60 wrote:
Hello all,
I have a GFF3 file of variants from nextgen sequencing and want to
find
non-synonymous changes. Any suggestions?
One possible way would be:
1. Use tool "Compute an expression on every row" to extract the
reference allele and sample allele from column 9 (attributes column)
of
the GFF3 file
2. Download some codons (see help for "mutate codons" tool for more
info
about this)
3. Use the "mutate codons" tool to mutate the codons with the variants
extracted from the GFF file.
Here is the problem:-
The help examples for the tool "compute an expression on every row"
are
very simplistic. This tool is much more powerful. Where can we find
information about how to extract substrings with this tool?
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modified 8.3 years ago
by
Mary Mangan • 40
•
written
8.3 years ago by
PaulW • 60
