Protegenomics analysis based on Pangenome references
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Updated
May 18, 2024 - Jupyter Notebook
Protegenomics analysis based on Pangenome references
Analysis of shared parts of a pangenome
Library to parse, edit and handle in memory GFA graphs
Build a partitioned pangenome graph from microbial genomes
A bioinformatic toolkit to align genome assemblies into pangenome graphs
a pacbiohifi read check for the quick view of the read types.
a pangraph visualization and pangenome visualization component for the pangenome.
analyzing the pangenomes from the core genesets, estimates, the core genes, pangenomes, breakage in the phylogeny and also phylogenomics analysis.
estimating proportion of the pangenome across the species post orthology runs.
sra cloner and interacts with the nucleotide sra and allows for multiple sra fetcher
single copy pangenome analysis from alignments to phylogeny and support GTRCAT and GTRGAMA model
maf to panache and extracting all snps and pangenome specific information.
Non-redundant pangenome assemblies from multiple genomes or bins
Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions
Scripts used by George S. Long
Mbovpan is a nextflow bioinformatic pipeline for Mycobacterium bovis pangenome analysis. The goal of Mbovpan is to help researchers to study the M. bovis pangenome in an automatic and easy way.
Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
The lumpy skin disease virus (LSDV) pangenome variation graph (PVG)
GET_HOMOLOGUES: a versatile software package for pan-genome analysis
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