Comments (4)
There is no such functionality, but you can install DNA Features Viewer in editable form. After downloading, go to the folder and install with:
pip install -e .
then you can edit the plotting function locally: add a parameter in the text definition after line 256 in MatplotlibPlottableMixin.py.
The section now looks like this:
text = ax.text(
x,
y,
label,
horizontalalignment="center",
verticalalignment="center",
bbox=bbox,
fontdict=fontdict,
zorder=2,
style='italic', # added line
)
from dnafeaturesviewer.
Alternatively, you can set or change plotting parameters:
import matplotlib.pyplot as plt
plt.rcParams["font.style"] = "italic"
from dnafeaturesviewer.
Finally, you can also save the plot in a vector graphics format (svg) and use an image editor (Inkscape) to change the text.
from dnafeaturesviewer.
The font.style='italic'
is part of the fontdict, which you can customize separately for each feature in DNA Features Viewer. I don't know the use case here but something like this should work:
from dna_features_viewer import BiopythonTranslator
class MyCustomTranslator(BiopythonTranslator):
def compute_feature_fontdict(self, feature):
return {'style': 'italic'} if (feature.type == "CDS") else {}
graphic_record = MyCustomTranslator().translate_record("example_sequence.gb")
ax, _ = graphic_record.plot(figure_width=10)
If you want only part of your label to be italic, then it may be more complicated but you could try Matplotlib's Latex rendering feature
from dnafeaturesviewer.
Related Issues (20)
- Change shape of feature arrows HOT 2
- Cannot apply sequence translation on plot_on_multiple_lines or plot_on_multiple_pages HOT 2
- BiopythonTranslator: SeqFeatures with location_operator='join' get wrong position
- Labels overlap whan sharing axis HOT 2
- Feature request: x_lim best-fit HOT 6
- Enhanced Bokeh support for multiple plots HOT 2
- Linking exon annotations with intron lines, and other things. HOT 5
- Add an example which plots sequence features not starting from 0 HOT 5
- truncated scaffolds from gff files HOT 4
- figure is not coming
- type hints support HOT 1
- Error on BioPython v1.8.0 HOT 9
- type error for global variable related to BioPython update HOT 2
- sequences display from 1 not 0 ? HOT 1
- How to solve the memory problem of batch plotting? HOT 3
- Overlapping arrows in circular DNA HOT 1
- CircularGraphicRecord does not work. Unable to make circular graphs HOT 1
- UndefinedSequenceError with gff files and BioPython 1.81
- Oval or diamond/octagon in addition to arrows for displayed features? HOT 1
- 'Seq' object has no attribute 'defined' HOT 2
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