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GeneSeqer maps ESTs and contigs against a genome sequence, producing gapped alignments and proposed exon structures for the genes that are covered.
There are 3 versions of this app -- tiny, medium, and large. These run on 16, 64, and 128 cores on the Stampede server at TACC. Take a guess and match your transcript file and genome size to number of cores.
- To use GeneSeqer-5.0, import your data in fasta format.
Use testtrans.fa and genome.fa from the directory above as test input.
Parameters Used in App
When the app is run in the Discovery Environment, use the following parameters with the above input file(s) to get the output provided in the next section below.
- Default parameters only, no further configuration needed.
Expect a file named GeneSeqer_Out as output.
Tool Source for App