:: DESCRIPTION
GRAFIMO is a command-line tool that extends the traditional Position Weight Matrix (PWM) scanning procedure to VGs.
::DEVELOPER
:: SCREENSHOTS
N/a
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Tognon M, Bonnici V, Garrison E, Giugno R, Pinello L.
GRAFIMO: Variant and haplotype aware motif scanning on pangenome graphs.
PLoS Comput Biol. 2021 Sep 27;17(9):e1009444. doi: 10.1371/journal.pcbi.1009444. PMID: 34570769; PMCID: PMC8519448.
:: DESCRIPTION
Pan-Tetris is our interactive software tool that enables the visual inspection of gene occurrences in a pan-genome table. It allows the user to modify the composition of such pan gene groups with an aggregation technique that is inspired by the famous Tetris game.
::DEVELOPER
Research Group “Integrative Transcriptomics” , Center for Bioinformatics Tübingen, University of Tübingen
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2015;16 Suppl 11:S3. doi: 10.1186/1471-2105-16-S11-S3. Epub 2015 Aug 13.
Pan-Tetris: an interactive visualisation for Pan-genomes.
Hennig A, Bernhardt J, Nieselt K.
:: DESCRIPTION
VisualRepbase is a Java interface for the study of occurrences in the whole annotated genome.
:: DEVELOPER
Genetic Information Research Institute
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Tempel S, Jurka M, Jurka J.
VisualRepbase: an interface for the study of occurrences of transposable element families.
BMC Bioinformatics. 2008 Aug 18;9:345.
