注册 登录  
 加关注
   显示下一条  |  关闭
温馨提示!由于新浪微博认证机制调整,您的新浪微博帐号绑定已过期,请重新绑定!立即重新绑定新浪微博》  |  关闭

wangyufeng的博客

祝愿BB 健康开心快乐每一天

 
 
 

日志

 
 

群体遗传学分析常用软件列表:Software for Population Genetic Analyses  

2012-12-07 22:53:57|  分类: 数量遗传学 |  标签: |举报 |字号 订阅

  下载LOFTER 我的照片书  |
Sequence analyses

COALESCE: estimates the effective population size of a single
constant population using nonrecombining sequences.

DnaSP: estimates several measures of DNA sequence
variation within and between populations, linkage disequilibrium,
recombination, gene flow and gene conversion.

FLUCTUATE: estimates the effective population size and an
exponential growth rate of a single growing population using
nonrecombining sequences.

GENETREE: allows ancestral inference from DNA sequences
from single or subdivided populations which conform to the
infinite sites model.

IM: Isolation Model testing- multiple versions w/ migration

ProSeq: PROcessor of SEQuences- aligns, edits, and
analyzes sequence data.

SITES: analysis of comparative DNA sequence data.

Allelic analyses

Arlequin: population genetics software environment able
to handle large samples of molecular data (RFLPs, DNA sequences,
microsatellites), while retaining the capacity of analyzing
conventional genetic data (standard multi-locus data or mere allele
frequency data).

BOTTLENECK: a program for detecting recent effective population
size reductions from allele data frequencies.

FSTAT: calculates Weir & Cockerham's estimators of F-
statistics.

Hickory: Software for analysis of geographic structure in genetic data.
Estimates F-statistics from dominant or codominant marker data.

GenePop on the web: population genetic software.
Genepop computes tests for Hardy-Weinberg equilibrium, differentiation
and disequilibrium as well as classical population parameters.

MIGRATE: estimates the effective population sizes and migration
rates of two constant populations using nonrecombining
sequences, microsatellite data or enzyme electrophoretic
data.

MultSim: estimates founder numbers from allelic data on source and founder populations

POPGENE: analysis of genetic variation among and within populations
using co-dominant and dominant markers.

TFPGA (Tools for population genetic analysis): a Windows
program for the analysis of allozyme and molecular data. Among its
features include an intuitive word processor-like interface, the
ability to analyze both codominant and dominant markers, and support
for hierarchical data sets.

Phenotypic data

CPC: Common Principal Component Analysis software
written by Patrick Phillips: a data analysis technique
that allows two or more matrices to be compared in a
hierarchical fashion.

Quantitative genetics

QTL Cartographer.
Quantitative genetics packages compiled by B. Walsh.

Phylogenetics

DAMBE: integrated software package for comparative molecular data.
HY-PHY: hypothesis testing using phylogenies.
PUZZLE: reconstruct trees from sequence by maximum likelihood.
PHYLIP.
Big list of phylogenetics programs.

Instructional software

PopBio: population biology simulation package written for
the Macintosh; contains components for population growth,
population genetics, predator/prey interactions, and inter-
specific competition.

Population genetic applets that can be run from the web,
including genetic drift, Wahlund effect, etc.

Populus: simulation software for population biology and
evolutionary ecology.

Back to Resources homepage.

Last updated, 1/29/2006

  评论这张
 
阅读(1765)| 评论(0)
推荐 转载

历史上的今天

在LOFTER的更多文章

评论

<#--最新日志,群博日志--> <#--推荐日志--> <#--引用记录--> <#--博主推荐--> <#--随机阅读--> <#--首页推荐--> <#--历史上的今天--> <#--被推荐日志--> <#--上一篇,下一篇--> <#-- 热度 --> <#-- 网易新闻广告 --> <#--右边模块结构--> <#--评论模块结构--> <#--引用模块结构--> <#--博主发起的投票-->
 
 
 
 
 
 
 
 
 
 
 
 
 
 

页脚

网易公司版权所有 ©1997-2017