An analysis and visualization platform for 'omics data
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Updated
Aug 1, 2024 - Python
An analysis and visualization platform for 'omics data
Federating genomes with love (and synteny derived from functional annotations)
Pangenome Analysis in Prokaryotes Lesson
Scripts and utilities for pangenomic/phylogenomic analysis of prokaryotic genomes. Scripts for the analysis of genomic features such as C-ARSC, N-ARSC, and intergenic spacer lengths are also included.
GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
A pipeline for construction and graphical visualization of annotated pangenome networks.
Talleres Internacionales de Bioinformática - Centro de Ciencias Genómicas, UNAM, Cuernavaca, México
Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
AMR/VF LGT focused bacterial genomics analysis workflow
A nextflow pipeline to run the mummer pipelines (align genomes, call snps) and process outputs into sane formats.
An accurate aligner of long reads to a variation graph, based on co-linear chaining
Construct and Analyze the North American Vitis pangenome
Pangenomics Workshop Overview
Introduction to the Command Line for Pangenomics
Topological data analysis for Comparative Genomics
This repo contains scripts used for the identification of phylogenetic marker genes (PMGs) in assembled metagenomic data. Code is provided for benchmarking this method on sequenced genomes as well as running this analysis on metagenomic data. These scripts are in development.
Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions
generating hardware accelerators for pangenomic graph queries
Library to parse, edit and handle in memory GFA graphs
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