Welcome to D-Genies’s documentation!¶
Dot plots are widely used to quickly compare sequence sets. They provide a synthetic similarity overview, highlighting repetitions, breaks and inversions. Different tools have been developed to easily generated genomic alignment dot plots, but they are often limited in the input sequence size. D-GENIES is a standalone and web application performing large genome alignments using minimap2 software package and generating interactive dot plots. It enables users to sort query sequences along the reference, zoom in the plot and download several image, alignment or sequence files. D-GENIES is an easy-to-install, open-source software package (GPL) developed in Python and JavaScript. The source code is available at https://github.com/genotoul-bioinfo/dgenies and it can be tested at http://dgenies.toulouse.inra.fr/.
How to cite?¶
Cabanettes F, Klopp C. (2018) D-GENIES: dot plot large genomes in an interactive, efficient and simple way. PeerJ 6:e4958 https://doi.org/10.7717/peerj.4958
How to install?¶
How to use?¶
Code API¶
Index¶
Python server part¶
- Python packages & modules
- Subpackages
- dgenies.lib package
- Submodules
- dgenies.lib.crons module
- dgenies.lib.decorators module
- dgenies.lib.drmaasession module
- dgenies.lib.fasta module
- dgenies.lib.functions module
- dgenies.lib.job_manager module
- dgenies.lib.latest module
- dgenies.lib.mailer module
- dgenies.lib.paf module
- dgenies.lib.parsers module
- dgenies.lib.upload_file module
- dgenies.lib.validators module
- Module contents
- dgenies.bin package
- dgenies.lib package
- Submodules
- Module contents
- Subpackages