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tools for working with genome variation graphs

Fast reading of delimited files

A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.

Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species

Short-read and long-read sequencing tools for diagnostics

SMC++ infers population history from whole-genome sequence data.

Mumemto: multi-MUM and MEM finding across pangenomes

A library for running k-mers based GWAS

Efficient program for calculating Extended Haplotype Homozygosity (EHH) and Integrated Haplotype Score (iHS)

CNEFinder: Finding Conserved Non-coding Elements in Genomes

Fast in-silico normalization algorithm for NGS data

Combine reference and assembled transcriptomes for RNA-Seq analysis

Scaffolding with assembly likelihood optimization

ABLE - Approximate Blockwise Likelihood Estimation

Pipelines and scripts for analysing RNA-seq，genome and other sequecing data.

This is a population-genetic forward simulation program incorporating selection at multiple loci, arbitrary population structure and demography, and habitat specific fitness regimes. The acronym SL…