- Non-alphanumeric characters (from '-') are stripped.
- All search keyword are used in searching links:
e.g. bioinformatics links directory will search for links that contain all three keywords in title, description, or tags. - You can search for an exact phrase by enclosing the query in quotes:
e.g. "bioinformatics links directory" - e.g. Search query "genomic sequences" dna will search for links containing the phrase "genomic sequences" and dna.
- You can include OR uppercase keyword:
e.g. dna OR rna looks for keywords dna or rna. - You can include - prefix or NOT uppercase keyword to define keywords that should not be included:
e.g. dna OR rna NOT protein (alternatively: dna OR rna -protein) will look for links with keywords DNA or RNA, but not protein
3Matrix
http://motif.stanford.edu/distributions/3matrix/ [open in a new window]
3Matrix is a tool for visualizing protein sequence motifs and their properties in 3 dimensions. This tool needs to be downloaded and run locally on your own machine.
This content is being maintained by brutlag.
links directory index: 10| Title | ||
|---|---|---|
| 3MATRIX and 3MOTIF: a protein structure visualization system for conserved sequence motifs | 2003 | 10 |
Documentation
To install the 3matrix package, perform the following steps:
1. From this web page, download '3matrix-1.0.tar.gz'
2. In a convenient location, uncompress and unpack the software by
typing:
gunzip 3matrix-1.0.tar.gz
tar -xvf 3matrix-1.0.tar
This creates a directory ./3matrix-1.0 containing the distribution
files.
3. Change directories into the 3matrix-1.0 directory that was just
created.
4. Open and carefully read the README file there for instructions.
** NOTE: You will probably need to download the pdb-xx-20xx.tar file
as well - the README file will give you the necessary details.
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To cite this work, use the following reference:
Steven P. Bennett, Lin Lu, and Douglas L. Brutlag,
"3matrix and 3motif: A Protein Structure Visualization System for Conserved Sequence Motifs."
In press, Nucleic Acids Research.
Please send questions and comments to one of the following people:
Steven P. Bennett (encino@stanford.edu) if before 06/2003
Douglas L. Brutlag (http://cmgm.stanford.edu/~brutlag) if after 06/2003
MLSThttp://www.mlst.net/MLST (Multi Locus Sequence Typing) is a nucleotide sequence based approach for the unambiguous characterisation of isolates of bacteria and other organisms using the sequences of internal fragments of…
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