We use Gel compare Software which allows comparison of the similarity between isolates banding patterns and therefore their relatedness. The program also allows construction of a dendagram. Hope this helps!

Hi Braj,

what kind of analysis do you want??

For example, if you want to find correlations between your band profile, as a first and simple analysis method, you can try a free software called F.A.M.D

http://www.famd.me.uk/famd.html

You can also try the trial version of Phoretix 1D Pro, by TotalLab. which will provide you a more refined way to work with you data. They were releasing a new version of TotalLab Quant, but I don't know when...

www.totallab.com

For analysis directly from the gel image, I would recommend PyElph, is a very user-friendly freeware: http://www.biomedcentral.com/1471-2105/13/9

If you choose to generate the binary matrix manually, you can input those data into PHYLIP: http://evolution.genetics.washington.edu/phylip.html

Dear Mr. Dutra,

Thanks for your kind Ans., I want to see genetic variations, % similarity and want to make phylogenetic tree with the help of these RAPD band patterns.

I tried FAMD software to analyse Gel pictures but was not able to load. Actually I have RAPD JPGE format gel pictures.........

We use Gel compare Software which allows comparison of the similarity between isolates banding patterns and therefore their relatedness. The program also allows construction of a dendagram. Hope this helps!

Thanks to all for giving me these all information...........Thanks a lot!!

you can get a full trial version of GelCompar II at http://www.applied-maths.com/obtain-free-evaluation-software-license

Hi Braj,

So Phoretix1D Pro will definitively fit your needs! I used it in the past and was happy with how easy it is to use. Just keep in mind that unfortunately this is a trial version

Dear all,

Thanks to given me, your desperate and valuable suggestions...........

thanks

I think this software can be the best choice:

http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-015-0703-0

https://sourceforge.net/projects/gelj/?source=navbar

It is free but has similar functionality as commercial Phoretix 1d Pro.

I also need a free software for analysing my RAPD gel .anyne send me link for free software available for  this?

Hello

GelQuest is the software of choice for the analysis of DNA fingerprint data and DNA fragment analysis. It works in a fast and efficient way with trace files (FSA files) as well as with gel image files (TIFF, JPG, BMP, etc.) and handles AFLP, t-RFLP, ERIC-PCR, RFLP-PCR or RAPD data.

PAST software is recommended for that issue.

I used NTSYS and DARWIN softwares for my RAPD, ISSR and EST-SST analysis.

Dear Braj M.

For RAPD you can use NTSYS

Best

NTSYs software: http://www.exetersoftware.com/cat/ntsyspc/ntsyspc.html

DARWIN software: http://darwin.cirad.fr/product.php

Please tell me in NTsys software for RAPD markers analysis, the usage of rows and columns for genotype no. or primers no. for RAPD markers. how to get PIC value for RAPD markers.

can i analyse this data through darwin

Suvarna Biradar

To calculate the PIC value for the RAPD binary data, you can use Molkin 3.0 software. It is very simple and friendly.

I need to use the BioNumerics Software to find the similarity between isolates banding patterns,the relatedness and

construction of a dendagram, I have banding patterns for 75 isolates . which the tutoring video i need to follow, do i need the first enter the data before import the first gel?

For RAPD you can use NTSYS

Dear Balqees,

BioNumerics Software is a good software.