gordon on master
use safer buffer sizes update macOS build for Travis Merge pull request #917 from sa… (compare)
.othe Makefile just prefixes the path to the
.ofor most of the
.cfiles and IIRC only the tools get compiled individually
cmpcall failed and returned 1 but as it seems all cmp-calls are called with
-sto make them silent. this does not help if we want to try to debug these. anyone got a problem with removing those
cmphas no output anyway if there is no error.
I would like to add the CDS feature to my Gff3 file, that has exons in it. I saw that genometools can do this for you.
"gt cds -startcodon -finalstopcodon -seqfile foo.fasta -o foo.gff3 [GFF3-FILE]"
1) I am looking for the CDS to be the longest ORF with an ATG start codon per mRNA. Do the gff3 coordinates in the output reflect that?
2) It is possible that a single mRNA will give rise to two CDS of equal size but with different start and stops. In case of such conflicts, what does gt cds do?
3) I did not see a flag for specifying the genetic code. Is this by default "standard vertebrate"?