EMBASSY Applications

Contents

• CBSTOOLS
• DOMAINATRIX
• DOMALIGN
• DOMSEARCH
• EMNU
• ESIM4
• HMMERNEW
• IPRSCAN
• MEMENEW
• MIRA
• MSE
• MYEMBOSS
• MYEMBOSSDEMO
• PHYLIPNEW
• SIGNATURE
• STRUCTURE
• TOPO
• VIENNA

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CBSTOOLS

Application details and documentation for CBSTOOLS

CBSTOOLS is available as release 1.0.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file CBSTOOLS-1.0.0.tar.gz

DOMAINATRIX

Previous distributions of the protein domain programs from Jon Ison's group were in a single EMBASSY package. This is now split into 5 packages according to function.

Application details and documentation for DOMAINATRIX

DOMAINATRIX is available as a Beta release 0.1.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file DOMAINATRIX-0.1.0.tar.gz

Application details and documentation for DOMALIGN

DOMALIGN is available as a Beta release 0.1.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file DOMALIGN-0.1.0.tar.gz

Application details and documentation for DOMSEARCH

DOMSEARCH is available as a Beta release 0.1.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file DOMSEARCH-0.1.0.tar.gz

Application details and documentation for SIGNATURE

SIGNATURE is available as a Beta release 0.1.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file SIGNATURE-0.1.0.tar.gz

Application details and documentation for STRUCTURE

STRUCTURE is available as a Beta release 0.1.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file STRUCTURE-0.1.0.tar.gz

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EMNU (EMBOSS Menu is Not UNIX)

Application details and documentation for EMNU

EMNU is available as release 1.05 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file EMNU-1.05.tar.gz

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ESIM4 (EMBOSS version of SIM4)

Application details and documentation for ESIM4

ESIM4 is available as release 1.0.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file ESIM4-1.0.0.tar.gz

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HMMERNEW (EMBOSS version of HMMER 2.3.2)

Application details and documentation for HMMERNEW

HMMER 2.3.2 is available from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file HMMER-2.3.2.tar.gz

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IPRSCAN (InterProScan)

Application details and documentation for IPRSCAN

IPRSCAN is available as release 4.3.1 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file IPRSCAN-4.3.1.tar.gz

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MEMENEW (EMBOSS version of MEME 3.0.14)

Application details and documentation for MEMENEW which wraps release 3.0.14 of the Meme package

MEMENEW is available as release 0.1.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file MEMENEW-0.1.0.tar.gz

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MIRA

Application details and documentation for MIRA

CBSTOOLS is available as release 2.8.2 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file MIRA-2.8.2.tar.gz

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MSE (A Multiple Sequence Screen Editor for Biological Sequences.)

Application details and documentation for MSE

MSE is available as release 1.0.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file MSE-1.0.0.tar.gz

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MYEMBOSS (For sites to build their own applications)

Application details and documentation for MYEMBOSS

MYEMBOSS provides a directory structure and makefile stubs for developing your own applications more easily than in versions before 6.0.0.

MYEMBOSS requires autoconf, automake and libtool to be installed. See the INSTALL file for more informations.

MYEMBOSS is available as release 6.0.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file MYEMBOSS-6.0.0.tar.gz

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MYEMBOSSDEMO (For sites to build their own applications)

Application details and documentation for MYEMBOSS

MYEMBOSSDEMO provides a directory structure and makefile stubs for developing your own applications more easily than in versions before 6.0.0.

MYEMBOSSDEMO requires autoconf, automake and libtool to be installed. See the INSTALL file for more informations.

MYEMBOSSDEMO is available as release 6.0.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file MYEMBOSSDEMO-6.0.0.tar.gz

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PHYLIPNEW (Phylogeny Inference Package)

Application details and documentation for PHYLIPNEW.

PHYLIP was suppoert from the first EMBOSS release as one of the earliest EMBASSY packages. From 3.0.0 we included a conversion of the most recent PHYLIP. In release 6.0.0 this is now fully updated to release 3.67 (PHYLIPNEW). Program names now begin with 'f' rather than 'e' and interfaces are more EMBOSS-like. Please pass on feedback to our bug reporting list emboss-bug@emboss.open-bio.org

PHYLIPNEW is available as release 3.67 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file PHYLIPNEW-3.67.tar.gz

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TOPO (Transmembrane display)

Application details and documentation for TOPO

TOPO is available as release 1.0.0 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file TOPO-1.0.0.tar.gz

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Vienna RNA

Application details and documentation for VIENNA

ViennaRNA is available as release 1.7.2 from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file VIENNA-1.7.2.tar.gz

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