M. Shamshad

Plant Breeding && Data Science

Posts by Category

website

Adding Content to an Academic Website

9 minute read

Updated:

One thing I haven’t covered in my previous posts on creating and customizing an academic website is how to actually add content to your site. You know, the stuff that’s the reason why people go to your website in the first place? If you’ve followed those guides, your website should be professional looking and already feeling a little bit different from the stock template. However, adding new pages or tweaking the existing pages can be a little intimidating, and I realized I should probably walk through how to do so. Luckily Jekyll’s use of Markdown makes it really easy to add new content!

Customizing an Academic Website

8 minute read

Updated:

This is a followup to my previous post on creating an academic website. If you’ve followed that guide, you should have a website that’s professional-looking and informative, but it’s probably lacking something to really make it feel like your own. There are an infinite number of ways you could customize the academicpages template (many of them far, far beyond my abilities) but I’m going to walk you through the process I used to start tweaking my website. The goal here isn’t to tell you how you should personalize your website, but to give you the tools to learn how to implement whatever changes you want to make.

Building an Academic Website

23 minute read

Updated:

If you’re an academic, you need a website. Obviously I agree with this since you’re reading this on my website, but if you don’t have one, you should get one. Most universities these days provide a free option, usually powered by WordPress (both WashU and UNC use WordPress for their respective offerings). While these sites are quick to set up and come with the prestige of a .edu URL, they have several drawbacks that have been extensively written on.

Back to top ↑

PDF

Combining PDF Documents the Smarter Way

4 minute read

Updated:

My previous post on combining multiple PDF files had an important caveat that things would end up in the wrong order if you had files with leading ID numbers that started at 1 and ended at 12, you’d end up with PDFs combined in the order 1, 10, 11, 12, 2, 3, …, 9.

Combining PDF Documents

2 minute read

Updated:

How many times have you found that your institution has access to a digital version of a book you need only to discover that it comes in 15 different PDF files?

Back to top ↑

software

A tutorial on Genome-Wide Association Studies (GWAS) in Tassel (GUI)

3 minute read

Updated:

Genome-wide association studies (GWAS) increase their popularity among medical, biological, and social sciences to identify the association between single nucleotide polymorphisms and phenotypic traits. This tutorial aims to provide a guidelines for conducing genome wide analysis in Tassel.

A tutorial on investigate genetic admixture using STRUCTURE software

3 minute read

Updated:

Structure Software is a freely available software package that one may use for rigorous investigation of admixed individuals; identification of point of hybridization and migrants; and estimate over all structure of a population using a commonly used genetic markers such as SNPs and SSRs. This software was developed by Pritchard Lab at Stanford University and can downloaded at this link.

Back to top ↑

CI

Back to top ↑

mermaid

Back to top ↑

scientific

Back to top ↑

writing

Back to top ↑

QTL

Plot Genetic Linkage Maps using MapChart software

5 minute read

Updated:

MapChart is a free software to plot publishing quality genetic linkage maps as well as QTLs. This software was developed at Wageningen University by Roeland E. Voorrips and can be downloaded at this link .

Back to top ↑

maps,

Plot Genetic Linkage Maps using MapChart software

5 minute read

Updated:

MapChart is a free software to plot publishing quality genetic linkage maps as well as QTLs. This software was developed at Wageningen University by Roeland E. Voorrips and can be downloaded at this link .

Back to top ↑

molecular

Plot Genetic Linkage Maps using MapChart software

5 minute read

Updated:

MapChart is a free software to plot publishing quality genetic linkage maps as well as QTLs. This software was developed at Wageningen University by Roeland E. Voorrips and can be downloaded at this link .

Back to top ↑

Analysis

Plot Genetic Linkage Maps using MapChart software

5 minute read

Updated:

MapChart is a free software to plot publishing quality genetic linkage maps as well as QTLs. This software was developed at Wageningen University by Roeland E. Voorrips and can be downloaded at this link .

Back to top ↑

Structure

A tutorial on investigate genetic admixture using STRUCTURE software

3 minute read

Updated:

Structure Software is a freely available software package that one may use for rigorous investigation of admixed individuals; identification of point of hybridization and migrants; and estimate over all structure of a population using a commonly used genetic markers such as SNPs and SSRs. This software was developed by Pritchard Lab at Stanford University and can downloaded at this link.

Back to top ↑

TASSEL

A tutorial on Genome-Wide Association Studies (GWAS) in Tassel (GUI)

3 minute read

Updated:

Genome-wide association studies (GWAS) increase their popularity among medical, biological, and social sciences to identify the association between single nucleotide polymorphisms and phenotypic traits. This tutorial aims to provide a guidelines for conducing genome wide analysis in Tassel.

Back to top ↑