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Question: Any alternative (free, open source tool) for Geneious software for phylogenetic analysis?

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3.2 years ago by

Chicago, IL, USA

Dear all:

I have downloaded Geneious software trial version https://www.geneious.com/, but now it is expired. As a fresh level grad student, I can't afford to pay full version of Geneious software. I aware that Geneious has abundant features to analyze NGS data. My expectation is to find tools that relatively similar to Geneious. My major intent is to carry out phylogenetic analysis.Can anyone recommend the better alternative for Geneious tools? Is there any free, open source software tools that can be alternative for Geneious? My colleague is not well comfortable with R environment, so we are seeking tools that require less programming input. Can anyone give possible aid or point out which library we can use?

ADD COMMENT • link • modified 3.2 years ago by vmicrobio • 260 • written 3.2 years ago by Jurat Shahidin • 80

the universe is full of free softwares: bwa, bowtie, igv ....

' want a GUI ?

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ADD REPLY • link modified 3.2 years ago • written 3.2 years ago by Pierre Lindenbaum ♦ 132k

Hi:

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Yeah, any GUI or hand-on tools, or R package could. More specifically, I am looking for possible R packages, or hand-on software tools (free, open source, MAC user) that can be applied on phylogenetic analysis? I am looking for the tool that easy to work with and which also comfortable for researcher without a programming background. Could you list out possible tools or packages I can look at? Thanks

ADD REPLY • link modified 3.2 years ago • written 3.2 years ago by Jurat Shahidin • 80

I'd say you need to be a bit more specific with what you mean by 'phylogenetic analyses'. If this is just 'I want to draw a tree', there are plenty of GUI tools for this. E.g make alignments with Clustal, draw a tree with Dendroscope/FigTree etc.

You'll pretty quickly hit bottlenecks if you're limiting yourself to GUI tools though.

ADD REPLY • link written 3.2 years ago by Joe ♦ 18k

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