Analysis tools tutorials - Courses
English version of ABIM : Guide d'utilisation de logiciels
- Databases access and query - Submission
- A description of Databases EBI (UK)
- DBCAT (The Public Catalog of Databases) InfoBioGen
- The DDBJ/EMBL/GenBank Feature Table Definition EBI (UK), see also NCBI (USA)
- ACEDB Documentation AceDB
- EMBL Documentation EBI (UK)
- Genbank Overview NCBI (USA)
- Genbank files description (NCBI)
- PDB Documentation and Information RCSB (USA)
- PIR Information Ressources Georgetown (USA)
- SRS Manual Sanger
- SRS 5 Help Heidelberg (A short description of each available data bank on a SRS 5 server is given : see "Data Banks" of the sequence page)
- SRS 6 Manual EBI
- SRS 7 Manual InfoBioGen
- SWISS-PROT (and UniProt) Documentation EBI (UK)
- SWISS-PROT Protein Sequence Database (and UniProt) documentation
- SEQUIN NCBI
- Search Databases
- Sequences alignment
- Patterns ..
- Help for writing perl regular expression ABIM (in French)
- Pattern Matching Pointers (People, journals, software) Purdue (USA)
- Prosite Sever Documentation Expasy
- Protein Motif Fingerprint Database Manchester
- User's Guide for HMMER Protein and DNA Hidden Markov Models Washington, another link
- Phylogeny
- Structure
- MC-SYM user's guide (Montreal)
- CCP4 Program (cristallography)
- RasMol Roger Sayle, mirror at Berkeley
- THREADER (London) www : predicting protein tertiary structure by recognizing the correct fold from a library of alternatives
- VMD tutorial Illinois (USA)
- WHAT IF CMBI
- X-PLOR Yale (Axel Brunger's Research Group)
- Zuker's Mfold (RNA) manual
- Software package
- GCG Pasteur, see also GCG beginner's FAQ
- Gene-finding and machine learning systems (Pirate, Twain, Glimmer, MUMer, ...) Maryland (USA)
- GRAIL et GrailEXP ORNL
- PISE (a tool to generate Web interfaces for Molecular Biology programs) Pasteur
- PHYLIP (Phylogeny Inference Package) InfoBioGen, see also Joe Felsenstein (Washington)
- Phylip, Lamarc, PopG, DNATree Washington
- Software/Documentation Links Manchester (CCP4, X-PLOR, Raster3D, RasMol, ..)
- STADEN Software manual (Minnesota)
- Courses - Diverse
- 2can Bioinformatics EBI (UK)
- Algorithms for Molecular Biology Tel-Aviv (Israel)
- Algorithms in Molecular Biology (Karp, Ruzzo and Tompa) UW (pdf and postscript files)
- BASICS in BIOINFORMATICS Konstanz (Germany)
- BIMM 140 SDSC (USA)
- Biocomputing For Everyone Bielefeld (Germany)
- BioComputing Hypertext Coursebook (Pairwise Sequence Alignments, Networking, Multiple Alignment, Mathematical Basis of Molecular Phylogenetics, Genetic Algorithms and Protein Folding) BCD (Germany), mirror at IST (Italy)
- Biocomputing Tutorials Isrec (Switzerland)
- Bioinformatics course web (BE561, BF821, BE777) Boston (USA)
- Biocomputing (Courses and resources) InfoBioGen (France)
- BioPerl EBI (UK)
- CSB resources guides (Data Reduction and Analysis, Molecular Graphics, Sequence Manipulation and Analysis) Yale (USA)
- Computational gene recognition bibliography Rockefeller (USA)
- CORBA (Common Object Request Broker Architecture) EBI (UK)
- CS 439 Computational Biology Course (Challenges in the Human Genome Project, A survey of sequence comparison algorithms, A New Algorithm for DNA Sequence Assembly, Hidden Markov Models in Computational Biology, Locating Protein Coding Regions in Human DNA using a Decision Tree Algorithm, A System for Induction of Oblique Decision Trees (ps files)) John Hopkins (USA)
- The Genetic Algorithms Archive NCARAI (USA)
- Course Syllabi BCD
- Courses on Bioinformatics Rockfeller (USA)
- Cours de Bioinformatique (Banques et recherche de similitudes) DSI (in french)
- Distant homologies : motifs, patterns, profiles Trieste (Italy)
- Documentation and bioinformatics courses HGMP (UK)
- EMBOSS tutorial EMBnet, another link
- GEML (Gene Expression Markup Language) GEML (USA)
- Genetic Algorithms and Fractals INRIA (France)
- Guide to Structure Prediction EMBL (Germany)
- Introduction to Computational Molecular Biology MIT (USA)
- Introduction to Human Genome Computing via W3 CSHL (USA)
- Introduction to Programming using Python Pasteur
- List of Bioinformatics courses Peking (China)
- Molecular Modelling for Beginners CMBI
- Molecular Systematics and Evolution Newcastle (UK)
- NCBI Education NCBI
- OUBC Tutorials (GCG, Staden, Phylogeny) Oxford (UK)
- Pacific Symposium on Biocomputing PSB (1996 - 2006)
- Protein Sequence Analysis : a practical guide Manchester (UK)
- Representations and Algorithms for Computational Molecular Biology Stanford (USA)
- Sequence comparison Rouen (French)
- Similarity Searching Guides and Documentation HGMP (UK)
- Software/Documentation Links Manchester (CCP4, X-PLOR, Raster3D, RasMol, ..)
- Tutorials on sequence analysis Columbia (USA)
- Virtual School of Natural Sciences (Alignments, Substitution cost matrice, Genetic algorithm applied to protein folding ...) available on other sites BCD (Germany), Genoa (Italy) : paragraph : Our Online BioComputing Tutorial and Hypertext Coursebook ( see also the sub-paragraph : Examples of Hypertext Books)
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