How to Use NTSYS Pc For Molec for Genetic Diversity Analysis
NTSYS Pc For Molec is a software that can help you discover patterns and similarities in large datasets of molecular data. It can perform cluster analysis, ordination, and multiple factor analyses using various methods and metrics. You can download NTSYS Pc For Molec from the developer's website for $200[^2^], or you can try to find a free version online[^3^]. However, be careful of the source and the quality of the software.
In this article, we will show you how to use NTSYS Pc For Molec for genetic diversity analysis using an example of RAPD markers. RAPD markers are a type of molecular marker that can be used to assess the genetic variation and relatedness among individuals or populations. They are based on the amplification of random DNA fragments using a single primer.
To use NTSYS Pc For Molec for genetic diversity analysis, you need to follow these steps:
Prepare your data in an Excel file. The first row should contain 1, the number of rows, the number of columns, and 9 (if there is missing data, fill it with 9). The second row should contain the names of your markers (e.g., 1 to n). The second column should contain the names of your variables (e.g., varieties). The rest of the cells should contain the binary data for each marker and variable (e.g., 1 for presence and 0 for absence).
Save your file as a text tab delimited file with the extension .nts (e.g., example.nts).
Run NTedit from NTSYS Pc For Molec and open your .nts file. Save it again as a .nts file.
Run NTSYS from NTSYS Pc For Molec and open your .nts file. Go to Similarity and choose a similarity coefficient (e.g., Jaccard or Dice) and click Compute. This will create a similarity matrix for your data.
Go to Clustering and choose a clustering method (e.g., SHAN) and click Compute. This will create a dendrogram for your data.
Go to Tree and choose a tree format (e.g., Phylogram) and click View. This will display your tree on the screen.
You can save, print, or export your results as you wish.
By using NTSYS Pc For Molec for genetic diversity analysis, you can explore the relationships among your molecular data and gain insights into the genetic structure and variation of your samples. You can also compare different methods and metrics and see how they affect your results.
If you want to learn more about NTSYS Pc For Molec and how to use it for other types of molecular data, you can check out the user manual and the tutorial that are available on the developer's website. You can also find some examples and applications of NTSYS Pc For Molec in the scientific literature . NTSYS Pc For Molec is a powerful and versatile tool that can help you with your molecular data analysis.
One of the advantages of NTSYS Pc For Molec is that it can handle large and complex datasets with ease. You can import and export data from various formats, such as Excel, text, or NEXUS. You can also edit and manipulate your data using the built-in functions, such as transpose, merge, split, or sort. You can also perform basic statistical analyses, such as mean, standard deviation, or correlation.
Another advantage of NTSYS Pc For Molec is that it can perform a wide range of multivariate methods and techniques, such as principal component analysis, multidimensional scaling, canonical correlation analysis, discriminant analysis, or factor analysis. You can also choose from different distance or similarity measures, such as Euclidean, Manhattan, Hamming, or Bray-Curtis. You can also apply different clustering algorithms, such as UPGMA, WPGMA, single linkage, complete linkage, or Ward's method.
A third advantage of NTSYS Pc For Molec is that it can produce high-quality graphical outputs for your results. You can customize the appearance and layout of your graphs, such as colors, fonts, labels, or legends. You can also choose from different graph types, such as scatter plots, histograms, box plots, or biplots. You can also export your graphs as image files or copy them to the clipboard. 0efd9a6b88