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BaNG Nematode and Neglected Genomics |
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| The Blaxter Lab at the Institute of Evolutionary Biology, University of Edinburgh | ||
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Bioinformatics Software
A major activity in the Blaxter lab is the development and use of bioinformatics tools to analyse genome sequence data, particularly data relating to comparative, or phylo-, genomics. We have developed new bioinformatic tools for our comparative genomics research, and also use a number of public-domain tools.
[ Some useful scripts and programmes | Please see here for Blaxter Lab Databases | See here for the Ashworth Labs BioCluster pages ]
what
why
who currently curates
trace2dbEST A tool for processing EST capillary sequencing traces Mark Blaxter trace2seq A tool (derived from trace2dbEST above) for processing all sorts of capillary sequencing traces Mark Blaxter PartiGene A databasing tool for EST datasets current version 3.0.5 Mark Blaxter wwwPartiGene Web interface tool for PartiGene databases Mark Blaxter PartiGene for Mac OSX A port of our Partigene suite (including trace2dbest) for the Mac OS X 10.4 system Mark Blaxter prot4EST A pipeline for prediction of peptides from neglected genome sequence datasets James Wasmuth
annot8r Annotation of peptide or nucleotide sequences with GO, KEGG and EC tags based on sequence similarity Mark Blaxter annot8r_physprop Annotation of peptide sequences with physical property decriptions Mark Blaxter TaxMan A Taxonomy database Manager for large phylogenetic datasets Martin Jones MRSfinder A tool for finding the Matrix Attachment Region (MAR) Recognition Signature in DNA sequence Mark Blaxter SimiTri A tool for visualising the relative BLAST-based similarity scores for a sequence dataset compared to datasets from other organisms John Parkinson and Mark Blaxter CLOBB A tool for clustering (EST) sequences on the basis of BLAST similarity searches John Parkinson and Mark Blaxter MOTU_define.pl a programme for inference of Molecular Operational Taxonomic Units from DNA barcode data Mark Blaxter Blaxter Lab BLAST server A local installation of the NCBI BLAST toolkit, focussed on nematode genomics analysis Downloads Page of software available for download Links Links to users of our bioinformatics software
...other interesting things... 
The tick Boophilus microplus. See the ARTHROPODA database for analyses of ESTs from this chelicerate and many other arthropods. |
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