Documentation: Difference between revisions
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===Main CoGe Entrance Pages=== | ===Main CoGe Entrance Pages=== | ||
*[[Syntenic dotplot]] Genome analysis of E-coli B and K12 strains based on syntenic dotplot | |||
*[[OrganismView]] Search and get an overview of an organism and its genomic information | *[[OrganismView]] Search and get an overview of an organism and its genomic information | ||
*[[CoGeBlast]] Blast against any number of organisms using CoGe's Blast interface (supports Blast, and BlastZ). | *[[CoGeBlast]] Blast against any number of organisms using CoGe's Blast interface (supports Blast, and BlastZ). | ||
Revision as of 23:32, 5 October 2009
Web Application Documentation
Main CoGe Entrance Pages
- Syntenic dotplot Genome analysis of E-coli B and K12 strains based on syntenic dotplot
- OrganismView Search and get an overview of an organism and its genomic information
- CoGeBlast Blast against any number of organisms using CoGe's Blast interface (supports Blast, and BlastZ).
- FeatView Search for genomic features by name or description
- SynMap Generate syntenic dotplots of any two genomes
- GEvo Compare multiple genomic regions using a variety of sequence comparison algorithms for high-resolution analysis to quickly identify patterns of genome evolution
Additional CoGe Pages
- FeatList CoGe's tool for managing list of genomic features
- FastaView Generate Fasta sequences of multiple genomic features
- SeqView Generate a Fasta sequence of a genomic region
- GenomeView CoGe's interactive Genome Browser
- CoGeAlign Generate multiple sequence alignments
- GenomeMap Visually map genomic features to their genomic locations
- tRNAView Search for tRNAs in genomes and genomic sequence
- HSPView Viewing regions of sequence similarity as identified through a variety of tools in CoGe using a variety of sequence comparison algorithms
- MatrixView View alignment scoring matrices.
Backend Documentation
- CoGe's Open-ended Analysis Network
- CoGe Database
- CoGe Database API
- GeLo Graphics Library
- Genome Browser Documentation
- Gobe Flash Results Viewer (Used in Gevo) Documentation
Linking to CoGe
Since CoGe is a web-based application, its tools can be connected to one another using web links (URLs). As such, it is relatively straight-forward for links from other applications and data-sets to be created. For example, GEvo is a popular tool to link against.