The System for Integrate Genomic Resources and Analyses (STINGRAY) is a user-friendly web-based system designed to
analyse genomic data in the context of a pipeline. It was developed for Linux systems using Perl, Bioperl, CGI,
Apache and MySQL. EST and GSS data can especially benefit using the system since it can accept a) chromatograms,
b) download of sequences from GenBank, c) FASTA files stored locally or d) a combinations of all 3
STINGRAY uses the phred/phrap package to process chromatograms, evaluate quality of traces and remove vector contamination.
Clusterization is done using the CAP3 program.
Sequences are submitted to Blast analyses with database choosen by the user.
Conserved domain searches are also performed using the CDD tool of NCBI.
Interpro have been implemented in the pipeline as well, and tRNA-Scan, Psort, SignalP and OrthoMCL are avaliable too.
Beside that, it is possible to find genes or ORFs using GLIMMER, GlimmerHMM and by Orthologous Groups aproach (ORF by COGs), and then search the analysis mentionated above.
Once all the above similarities searches have been performed, the user can select some contigs and results for multiple alignment using ClustalW and phylogeny analyses using Phylip.
STINGRAY offers flexibility to the users by allowing them to configure the parameters of the used programs.
All the results can be filtered according to algorithm and database used, facilitating user visualization.
Furthermore, statistics and graphical results of the all analysis and processed chromatograms are presented.
Try STINGRAY during 24 hours. You may load 10 sequences (chromatograms or fasta) and run the programs avaliable into pipeline.
You just need to inform your email and the type of your sequences (nucleic acid ou protein) in the form below.
Your datas (sequences and programs analysis) will be remove from the STINGRAY after 24 hours.
For publication of results, please look the Publications section to know how to cite STINGRAY.
These software have GPL License.