VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Format

syncmer graphs, and perhaps other sorts of sequence graphs

Ultra-fast preprocessing and quality control for long-read sequencing data

Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data

MONI: A Pangenomic Index for Finding MEMs

This repository contains the code used to analyse data and produce figures for the manuscript "Genetic variation in human drug-related genes"

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes

Robust identification of orthologous synteny with the Orthology Index

A simple MSA viewer

Genotyping lots of samples with big pangenomes

Eat memory for cheating when you want to occupy a node in HPC. DO NOT FOR FURTHER DISTRIBUTION

Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.

HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.

PAF (pairwise alignment format) validator based on extended CIGAR strings

BWT construction and search

📈 📊 Introduces geom_pointdensity(): A Cross Between a Scatter Plot and a 2D Density Plot.

Testing rank calculation on BWT (not for endusers)

use the cigar string in the PAF to correct target and query endpoint issues

Here we present a method to plot the outputs of RFMIX version 2

A simple and lightweight parallel task engine

SV detection tool for nanopore sequence reads

Visualing species tree from ASTRAL with gene tree discordance

Annotation and Ranking of Structural Variation

Snakemake pipeline for running ancestry-specific IBDNe

PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files

A small program for interpolating genetic map distances