Any Local Gui-Guided Blast Tools?
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11.4 years ago
Beeth ▴ 170

Hi All,

I am currently looking into local, GUI-guided BLAST tools. I stumbled upon BlastStation2 and was wondering if anyone has experience with it ? Are there any similar tools such as BlastStation2 available, that I might have missed? It makes no difference whether it is free or commercial.

I really appreciate your help.

Thanks,

Beeth

blast blast local • 10k views
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5
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11.4 years ago

Try Geneious:

Geneious Pro is a revolutionary bioinformatics software platform that is both ultra-powerful and easy to use. Scientists, researchers and students are able to search, organize and analyze genomic and protein information via a single desktop program that provides publication ready images to enhance the impact of your research.

Database Search in Geneious Pro includes:

Custom multi-threaded BLAST search – Set up a local database with all your sequence data and BLAST it locally with our multi-threaded BLAST implementation.

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There's a free trial of Geneious Pro that turns into the free version after a few days, so after a few days you'll see that the free version is a bit limited, but it's still a pretty nice software package. I like the interface much more than web-based BLAST.

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4
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11.4 years ago

Have you looked into NCBI Genome Workbench?

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Thanks, no I haven't look on that yet! But I am more looking for local blast tools (commercial or non-commercial) as the BlastStation. I've used several time the local blast from NCBI as well as the NCBI toolkit but I'd like to know some alternatives.

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Thanks, no I haven't looked on that yet! But I am more looking for local blast tools (commercial or non-commercial) as the BlastStation. I've used several times the local blast from NCBI as well as the NCBI toolkit but I'd like to know some attractive alternatives.

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11.3 years ago
Yannick Wurm ★ 2.4k

And Sequenceserver allows you to easily set up a local BLAST server that you can access with your web browser.

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11.4 years ago
Geparada ★ 1.5k

I'm using blastall. I recomend "Introduction to linux using biolinux" to learn the basics. I you want you can skip the UNIX introduction and you can go directy to blastall chapter.

http://www.google.cl/url?sa=t&source=web&cd=1&ved=0CBsQFjAA&url=http%3A%2F%2Fnebc.nerc.ac.uk%2Fdownloads%2Fcourses%2FBio-Linux%2FblTutorial_latest.pdf&rct=j&q=biolinux+introductory+tutorial&ei=uKK8TYbmLqbx0gHCy_HhBQ&usg=AFQjCNHwl9ofh3h1sD3hqql7Mn37_veaUw&sig2=gujE1SuKMT2Y25wXowtvjg&cad=rja

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thank you very much! I'll have a look on that too!

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11.4 years ago
madk00k ▴ 360

Take a look at Unipro UGENE, free cross-platform integrated bioinformatics toolkit. Provides flexible GUI for BLAST and many other popular tools with possibility to build custom workflows.

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11.0 years ago
Dejian ★ 1.3k

BioEdit can do this job. See details in this document: How to create & query a local BLAST database using BioEdit

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11.3 years ago
Vince ▴ 150

Hi Beeth,

I developed a tool, BL!P, that may be of interest to you: http://blip.codeplex.com. It doesn't support local BLAST (yet), and instead relies on remote submission of jobs to NCBI BLAST. It was designed primarily to explore more advanced data filtering and search capabilities for BLAST results. If you decide to give it a try, feel free to contact me via the BL!P website if you need help or would like to comment.

You can watch a short talk I gave on BL!P here.

Vince

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7.8 years ago

Anyone heard of PerfectBlast on GOOGLE CODES

https://code.google.com/p/prfectblast/

Its nice

and Portable too

and its free

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