UsageΒΆ
Use the command backtranslate
to find substitutions that explain an amino
acid change:
$ backtranslate with_dna -o 210 data/mhv.fa - 1 Leu
1 A C
1 A T
If no reference is available, use the without_dna
subcommand:
$ backtranslate without_dna - Asp 92 Tyr
274 G T
The command find_stops
finds a list of positions and substitutions that
lead to stop codons. This list of destructive substitutions are useful when
analysing a pool of viral transcripts. Counting the appropriate nucleotides at
the given positions gives insight into how many transcripts are active.
$ backtranslate find_stops -o 210 data/mhv.fa -
216 A T
225 A T
230 C A
230 C G
243 A T
...