Description:
itaxotoolsconvphasegui 0.2.0
ConvPhaseGui
Reconstruct haplotypes from sequence data. Input and output can be in TSV or FASTA format.
This is a Qt GUI for ConvPhase, a convenient phase program that combines PHASE and SeqPHASE.
Executables
Download and run the standalone executables without installing Python.
Installation
ConvPhaseGui is available on PyPI. You can install it through pip:
pip install itaxotools-taxi-gui
convphase-gui
Usage
For information on how to use the program, please refer to the 1st section of the Hapsolutely manual.
Packaging
It is recommended to use PyInstaller from within a virtual environment:
pip install ".[dev]" -f packages.html
pyinstaller scripts/convphase.spec
Citations
ConvPhaseGui was developed in the framework of the iTaxoTools project:
Vences M. et al. (2021): iTaxoTools 0.1: Kickstarting a specimen-based software toolkit for taxonomists. - Megataxa 6: 77-92.
Sequences are phased using PHASE and SeqPHASE:
Stephens, M., Smith, N., and Donnelly, P. (2001). A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics, 68, 978--989.
Stephens, M., and Donnelly, P. (2003). A comparison of Bayesian methods for haplotype reconstruction from population genotype data. American Journal of Human Genetics, 73:1162-1169.
Flot, J.F. (2010) seqphase: a web tool for interconverting phase input/output files and fasta sequence alignments. Mol. Ecol. Resour., 10, 162–166.
License
For personal and professional use. You cannot resell or redistribute these repositories in their original state.
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