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backtranslate
Commits
e9a77fea
Commit
e9a77fea
authored
Sep 21, 2015
by
Laros
Browse files
Setup fix retry 4.
parent
549cc411
Changes
2
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README.md
View file @
e9a77fea
...
...
@@ -31,17 +31,17 @@ To get substitutions in a readable format, we can use the following:
variants = subst_to_cds(substitutions, 12)
## Command line interface
Use the command
`back
_
translate`
to find substitutions that explain an amino
Use the command
`backtranslate`
to find substitutions that explain an amino
acid change:
$ back
_
translate with_dna -o 210 data/mhv.fa - 1 Leu
$ 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:
$ back
_
translate without_dna - Asp 92 Tyr
$ backtranslate without_dna - Asp 92 Tyr
274 G T
...
...
@@ -50,7 +50,7 @@ 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.
$ back
_
translate find_stops -o 210 data/mhv.fa -
$ backtranslate find_stops -o 210 data/mhv.fa -
216 A T
225 A T
230 C A
...
...
setup.py
View file @
e9a77fea
...
...
@@ -71,8 +71,8 @@ setup(
packages
=
[
package
],
install_requires
=
dependencies
,
entry_points
=
{
'console_scripts'
:
[
'{0} = {0}.
{0}
:main'
.
format
(
package
)]
},
'console_scripts'
:
[
'{0} = {0}.
cli
:main'
.
format
(
package
)]
},
classifiers
=
classifiers
,
keywords
=
' '
.
join
(
keywords
)
)
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