Powerful statistics for VCF files

ChIP-seq peak caller for reads mapped to a graph-based reference genome

a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference

Toolset for SV simulation, comparison and filtering

tomato graph pangenome

a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies

Implementation of the TreeShrink problem

NOVOPlasty - The organelle assembler and heteroplasmy caller

Pairwise whole genome aligner

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Phased structural variant discovery in pangenomes

Structural variant toolkit for VCFs

Tools for analyzing trees

Panacus is a tool for computing statistics for GFA-formatted pangenome graphs

Meta package for processing and visualizing tree with data

horIzoNtal TransfER CHAracterization in Non-assembled GEnome

NEW location of IQ-TREE software for efficient phylogenomic software by maximum likelihood http://www.iqtree.org

💯 Curated coding interview preparation materials for busy software engineers

Show pangenome graphs in an easy way

Tool for plotting sequencing data along genomic coordinates.

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

Tool to plot synteny and structural rearrangements between genomes

Candida albicans co-expression

Studio Ghibli colour palettes

A C++ library and utilities for manipulating the Graphical Fragment Assembly format.

A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulation.

Chromosome-level scaffolding using multiple references

Identify and find telomeres, or telomeric repeats in a genome.

Notes upon pangenome graphs construction