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title="https://www.gravatar.com/avatar/81e89bdcd46adae9c20fff13fdd00839?s=240&d=mp" /></a></div><h1 class="home-title">Md. Shamim Aktar</h1><div class="home-subtitle"><div id="id-1" class="typeit"></div></div><div class="links"><a href="https://github.com/shamimaktar" title="GitHub" target="_blank" rel="noopener noreffer me"><i class="fab fa-github-alt fa-fw" aria-hidden="true"></i></a><a href="https://linkedin.com/in/mdshamimaktar" title="LinkedIn" target="_blank" rel="noopener noreffer me"><i class="fab fa-linkedin fa-fw" aria-hidden="true"></i></a><a href="https://facebook.com/ShamimAktarShovon" title="facebook" target="_blank" rel="noopener noreffer me"><i class="fab fa-facebook fa-fw" aria-hidden="true"></i></a><a href="mailto:[email protected]" title="Email" rel=" me"><i class="far fa-envelope fa-fw" aria-hidden="true"></i></a><a href="/index.xml" title="RSS" target="_blank" rel="noopener noreffer me"><i class="fas fa-rss fa-fw" aria-hidden="true"></i></a></div></div>
<article class="single summary" itemscope itemtype="http://schema.org/Article"><div class="featured-image-preview">
<a href="/airemlf90_vce/"><img
class="lazyload"
src="/svg/loading.min.svg"
data-src="/airemlf90.jpg"
data-srcset="/airemlf90.jpg, /airemlf90.jpg 1.5x, /airemlf90.jpg 2x"
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title="Variance component estimation with AIREMLF90 for Single Trait Analysis" width="384" height="134" /></a>
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<a href="/airemlf90_vce/">Variance component estimation with AIREMLF90 for Single Trait Analysis</a>
</h1><div class="post-meta"><span class="post-author"><a href="/" title="Author" rel=" author" class="author"><i class="fas fa-user-circle fa-fw" aria-hidden="true"></i>Md. Shamim Aktar</a></span> <span class="post-publish">published on <time datetime="2023-02-05">2023-02-05</time></span> <span class="post-category">included in <a href="/categories/abg/"><i class="far fa-folder fa-fw" aria-hidden="true"></i>ABG</a></span></div><div class="content">In the previous post, I tried to show how to solve MME to derive BLUP values with assumed variance components. We need to estimate actual variance components of the animals under study in practical application. Especially, if:
we are interested in a new trait, from which no parameters are available variances and covariances might have changed over time considerable changes have occurred in a population e.g. due to recent importations.</div><div class="post-footer">
<a href="/airemlf90_vce/">Read More</a><div class="post-tags">
<i class="fas fa-tags fa-fw" aria-hidden="true"></i> <a href="/tags/vce/">VCE</a>, <a href="/tags/variance-component-estimation/">Variance component estimation</a>, <a href="/tags/blupf90+/">BLUPF90+</a>, <a href="/tags/quantitative-genetics/">Quantitative genetics</a></div></div>
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<a href="/blupf90_single_trait_mme_solver/"><img
class="lazyload"
src="/svg/loading.min.svg"
data-src="/blupf90.jpg"
data-srcset="/blupf90.jpg, /blupf90.jpg 1.5x, /blupf90.jpg 2x"
data-sizes="auto"
alt="/blupf90.jpg"
title="Single Trait Analysis with known/assumed variance components using BLUPF90+" width="865" height="302" /></a>
</div><h1 class="single-title" itemprop="name headline">
<a href="/blupf90_single_trait_mme_solver/">Single Trait Analysis with known/assumed variance components using BLUPF90+</a>
</h1><div class="post-meta"><span class="post-author"><a href="/" title="Author" rel=" author" class="author"><i class="fas fa-user-circle fa-fw" aria-hidden="true"></i>Md. Shamim Aktar</a></span> <span class="post-publish">published on <time datetime="2023-01-28">2023-01-28</time></span> <span class="post-category">included in <a href="/categories/abg/"><i class="far fa-folder fa-fw" aria-hidden="true"></i>ABG</a></span></div><div class="content">Estimation of breeding values is at the core of Animal Breeding for genetic improvement of livestock. The BLUP methodology solving MME bt Henderson is standard in this regard. BLUPF90+ is a combination of programs with which we can solve MME for simultaneously getting BLUE and BLUP values of animals for trait/s.
BLUPF90+ In this example, we will try to solve the single trait (Pre weaning weight gain, WWG) with fixed effect (sex) and random effect (animal) from Chapter 3 data on animal model of Mrode(2014).</div><div class="post-footer">
<a href="/blupf90_single_trait_mme_solver/">Read More</a><div class="post-tags">
<i class="fas fa-tags fa-fw" aria-hidden="true"></i> <a href="/tags/estimated-breeding-value/">Estimated breeding value</a>, <a href="/tags/blup/">BLUP</a>, <a href="/tags/blupf90/">BLUPF90</a>, <a href="/tags/quantitative-genetics/">Quantitative genetics</a></div></div>
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<a href="/100_years_of_the_a_matrix/"><img
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title="100 years of the A-Matrix" width="952" height="532" /></a>
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<a href="/100_years_of_the_a_matrix/">100 years of the A-Matrix</a>
</h1><div class="post-meta"><span class="post-author"><a href="/" title="Author" rel=" author" class="author"><i class="fas fa-user-circle fa-fw" aria-hidden="true"></i>Md. Shamim Aktar</a></span> <span class="post-publish">published on <time datetime="2022-12-23">2022-12-23</time></span> <span class="post-category">included in <a href="/categories/abg/"><i class="far fa-folder fa-fw" aria-hidden="true"></i>ABG</a></span></div><div class="content">In the year 1922, Sewall Wright first documented the idea of tracing paths to establish the relationships among animals. Though he was not working in the field of agriculture, his discovery laid the path (pun intended) toward revolutionizing the breeding and agriculture sector. Followed by Wright, scientists like Thompson, Henderson, Quaas, Meuwissen, Luo, Van Vleck, Mistzal, and many others extended his idea and derived the A-matrix or additive genetic relationship matrix or Numerator Relationship Matrix (NRM), Inverse of A-matrix (more realistic), and finally the Genomic Relationship Matrix (exploiting the Mendelian sampling term).</div><div class="post-footer">
<a href="/100_years_of_the_a_matrix/">Read More</a><div class="post-tags">
<i class="fas fa-tags fa-fw" aria-hidden="true"></i> <a href="/tags/additive-genetic-relationship-matrix/">Additive Genetic Relationship Matrix</a>, <a href="/tags/a-matrix/">A-matrix</a>, <a href="/tags/sewall-wright/">Sewall Wright</a></div></div>
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<a href="/vc6/"><img
class="lazyload"
src="/svg/loading.min.svg"
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title="Quick installation procedure for VCE 6.0.2 on Windows" width="545" height="170" /></a>
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<a href="/vc6/">How to install VCE 6.0.2 on a Windows x86 64-bit machine</a>
</h1><div class="post-meta"><span class="post-author"><a href="/" title="Author" rel=" author" class="author"><i class="fas fa-user-circle fa-fw" aria-hidden="true"></i>Md. Shamim Aktar</a></span> <span class="post-publish">published on <time datetime="2022-10-26">2022-10-26</time></span> <span class="post-category">included in <a href="/categories/abg/"><i class="far fa-folder fa-fw" aria-hidden="true"></i>ABG</a></span></div><div class="content">**This is the version6 of VCE a package for estimating (co)variance components by REML and Gibbs Sampling The vce6 directory contains 3 subdirectories: bin - contains executables for a number of computing platforms doc - contains the documentation in A4 and US Letter format examples - contains just that: data and parameter files that should run out of the box after installation** 1. First, go to this link and download the 53.</div><div class="post-footer">
<a href="/vc6/">Read More</a><div class="post-tags">
<i class="fas fa-tags fa-fw" aria-hidden="true"></i> <a href="/tags/variance-component-estimation/">Variance component estimation</a>, <a href="/tags/vce/">VCE</a></div></div>
</article><article class="single summary" itemscope itemtype="http://schema.org/Article"><div class="featured-image-preview">
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title="Find out about the popular research areas in the animal sciences and the purpose of this blog" width="300" height="168" /></a>
</div><h1 class="single-title" itemprop="name headline">
<a href="/first_post/">A brief overview of the popular research streams in Animal Husbandry</a>
</h1><div class="post-meta"><span class="post-author"><a href="/" title="Author" rel=" author" class="author"><i class="fas fa-user-circle fa-fw" aria-hidden="true"></i>Md. Shamim Aktar</a></span> <span class="post-publish">published on <time datetime="2022-02-07">2022-02-07</time></span> <span class="post-category">included in <a href="/categories/overview/"><i class="far fa-folder fa-fw" aria-hidden="true"></i>overview</a></span></div><div class="content"><p>Find out about the popular research areas in the animal sciences and the purpose of this blog</p></div><div class="post-footer">
<a href="/first_post/">Read More</a><div class="post-tags">
<i class="fas fa-tags fa-fw" aria-hidden="true"></i> <a href="/tags/overview/">overview</a>, <a href="/tags/introduction/">introduction</a></div></div>
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