SAVi is used to visualize alignments formatted in .paf files, it comes with a GUI in python. It reads the .paf file and generates interactive SVGs given a target name.
cefpython3
pandas
numpy
conda create -n savi python=3.7 pandas numpy pip
conda activate savi
pip install cefpython3=66.0
python /path/to/SAVi_v02.py
GUI usage steps:
- Open a .paf file
- Click on the read button
- Write the name of the target to draw
- Click the draw button
- Save the output in .html or .svg
The image below shows an example of the GUI after a .paf file has been loaded
Copyright (c) 2018 Antoine Houtain
SAVi is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
SAVi is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
See the file LICENSE for more details.
You should have received a copy of the GNU General Public License along with the source code. If not, see http://www.gnu.org/licenses/.