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slydgenefamsanalyses

Phylogeny based detection of positive selection in gene families

supersfs

This is a tool for speculation of ancestral allel, calculation of sfs and drawing its bar plot. It is easy-to-use and runing fast. What you should prepare is the phased vcf file containg the data of populations you interested and the outgroup, the outgroup name file, and the annotation file. Enjoy it!!!

sus_cebifrons_genome

Code for the assembly, annotation and comparative analyses of sus cebifrons genome

svmu

A program to call variants from genome alignment

syntenyplotter

R package to draw syntenic plots in 3 different styles

synvisio

SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity detection toolkit.

syri

Synteny and Rearrangement Identifier

tadevodrosophila

Code for TAD_SV project

tiny

Whole genome alignments using LastZ software in vertebrate species. Code (1) drives embarrassingly parallel execution of commands, (2) merge output into sensible formats and (3) provides ways to draw figures.

tutorials

Tutorials on evolutionary genomics

ucr-module

vcf2arlequindiploid

A script designed to convert GBS/RAD/DNASEQ vcf data to arlequin diploid .arp format files

vcf2diyabc.py

script that convert vcf file into genotype data matrix to input DIYABC program.

wgac

Scripts used for whole genome analysis comparison (WGAC)