Toolkit for pangenome alignments
Project description
gaftools
gaftools is a fast and comprehensive toolkit designed for processing pangenome alignments. It provides various functionalities such as indexing, sorting, realignment, viewing and statistical analysis of rGFA-based GAF files.
Documentation is available on Read The Docs. Documentation can be locally built under docs
folder
using sphinx
. sphinx
is automatically installed when installing gaftools in dev mode.
Features
Viewing GAF files based on user-defined regions or node IDs.
Conversion of GAF format from unstable segment coordinates to stable coordinates and vice-versa.
New tags for GFA files for ordering of bubbles and sorting GAF files.
Post-processing GAF alignments using Wavefront Alignment and generating basic alignment statistics.
Easy-to-install
Open Source (MIT License)
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