I am just starting with phylogenetic trees. Does anyone know a free and not too complicate online platform for creating such trees? I have got environmental samples from biofilms.
Suggestions? Any help would be priceless.
Dear Tomasz,
Use ClustalW (http://www.ebi.ac.uk/Tools/msa/clustalw2/)for construction phylogenetic tree. first step do multiple sequence alignment, then construct tree.
Cheers
Hi Tomasz,
To create a phylogenetic tree you will need DNA sequence data from your samples. Once you have extracted the DNA and sequenced it, you can align the sequences for comparison and use that information to create a phylogenetic tree. I have had good luck with the MEGA series of programs for this purpose (http://www.megasoftware.net/).
I think you should try BEAST software. It's an user friend and free. Also you can easily learn how to build a tree.
You won't find to many online platforms but you could try this (no experience though): http://www.phylogeny.fr/
I would recommend you to do the work locally, but this then depends on what platform you are using, but here is a link to a previous post that has all the points you need to get a "publishable" tree: https://www.researchgate.net/post/How_do_you_align_DNA_sequences_for_phylogenetic_work_What_is_the_order_of_events_and_what_software_do_you_use
regards
I use MEGA. It is free and has a god tutorial and help function. Simply search for MEGA6 i google and download the newst version.
Dear Tomsz,
Use the MEGA6 newest version. It is user friendly and give quick and accurate result. Free version is available in net.
You can use CLC main workbench, download the trial version, but you can do various stuffs after end of the trial version as well.
http://www.clcbio.com/products/clc-main-workbench/
Click on this link.
Hello, while the establishment of phylogenetic tree from DNA sequence is commonly described in books and webdocuments, I'm fighting with another case. Could someone explain how to proceed to build tree diagram with Mega5 or mega6 starting from an Excel-generated matrix of genetic distance computed from SNP or SSR genotyping data ?
Hi there are many ways to have a nice phylogenetic trees such as NTYSIS, Genealex, ClustalW, MEGA4 and 5, BEAST softwares.
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