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The master copies of EMBOSS documentation are available at http://emboss.open-bio.org/wiki/Appdocs on the EMBOSS Wiki.
EMBOSS sigcleave
sigcleave predicts the site of cleavage between a signal sequence and the mature exported protein using the method of von Heijne. It reads one or more protein sequences and writes a standard EMBOSS report with the position, length and score of each predicted signal sequence. Optionally, you may specify the sequence is prokaryotic and this will change the default scoring data file used. The predictive accuracy is estimated to be around 75-80% for both prokaryotic and eukaryotic proteins.
Quick Start
To use sigcleave,
- upload your input protein data in most format, such as fasta, GenBank, Embl, or Emsembl, gcg formats.
- Choose your option, such as minimum weight score
- launch your job
- Resource: More information on input sequence feature and format could be found at https://pods.iplantcollaborative.org/wiki/display/sciplant/EMBOSS+Sequence+Feature+Format
Test Data
Input File
The input can be in most sequence format, such as fasta, gcg, GenBank, Embl, and Ensembl formats. For details, please see http://emboss.sourceforge.net/apps/release/6.0/emboss/apps/sigcleave.html
- Test input in GenBank sequence format: Community Data -> iplantcollaborative -> example_data ->EMBOSS -> Input -> Ach2_drome
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.
Output File(s)
Standard EMBOSS output sequence file.
- Expected output files: Community Data -> iplantcollaborative -> example_data -> EMBOSS -> Output -> sigcleave.output
Tool Source
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