seqlogo WebLogo difference

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7.8 years ago

biotech ▴ 570

I installed Weblogo via command line:

brew install WebLogo

But seems what has been installed is another program:

ls /usr/local/Cellar/weblogo/2.8.2/bin
        seqlogo

seqlogo is a Bioconductor package. Is it the same that the one I installed via brew?

https://www.bioconductor.org/packages/release/bioc/html/seqLogo.html

Thanks

brew • 1.7k views

ADD COMMENT • link 7.8 years ago by biotech ▴ 570

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Those appear to be two separate programs:

Bembom O (2016). seqLogo: Sequence logos for DNA sequence alignments. R package version 1.40.0.

and

Crooks GE, Hon G, Chandonia JM, Brenner SE WebLogo: A sequence logo generator, Genome Research, 14:1188-1190, (2004)

The executable for the weblogo program appears to be named seqlogo as seen from your ls command.

ADD REPLY • link 7.8 years ago by GenoMax 147k

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It's curious an R program has been converted to run in the shell. For seqLogo, just can find the program instructions for R version.

ADD REPLY • link 7.8 years ago by biotech ▴ 570

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Run /usr/local/Cellar/weblogo/2.8.2/bin/seqlogo -h (or -help) and see what you get. There should be some in-line help. WebLogo is 10+ years older than the R package.

ADD REPLY • link 7.8 years ago by GenoMax 147k

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