Module Detail Information

Name:Tmap
Type: Module
Short URL:
http://bit.ly/1B7EfgD
Description:tmap predicts transmembrane segments for an aligned set of protein sequences, utilising the algorithm described in: "Persson, B. & Argos, P. (1994) Prediction of transmembrane segments in proteins utilising multiple sequence alignments J. Mol. Biol. 237, 182-192.". A plot of the propensities to form the middle and the end of transmembrane regions is output. Bars are displayed in the plot above the regions predicted as being most likely to form transmembrane regions. The transmembrane regions for the complete alignment are given first, followed by the predictions for each individual sequence in the alignment.
Executable:
/tmap
Input Parameters:
 - Sequence
 - Start
 - End
 - Reverse
 - Ask
 - Nucleotide
 - Protein
 - Lower Case
 - Upper Case
 - Format
 - Database Name
 - Entry Name
 - UFO Features
 - Features Format
 - Features File
 - Turn Off Prompts
 - Standard Output
 - Filter
 - Options
 - Debug
 - Verbose
 - Help
 - Report Warnings
 - Report Errors
 - Report Fatal Errors
 - Report Dying Program Messages
 - Graph Type
 - Graph Prompting
 - Graph Description
 - Graph Title
 - Graph Subtitle
 - Graph X-Axis Title
 - Graph Y-Axis Title
 - Version
 - Report Format
 - Report Base Filename
 - Report Extension
 - Report Output Directory
 - Report Show Accession Number
 - Report Show Description
 - Report Show Score
 - Report Show Nucleotide Strand
 - Report Show Full USA
 - Report Maximum Hits
 - Report Maximum Hits for One Sequence
Output Parameters:
 - Graph Output File
 - Graph Output Directory
 - Output File
File size:30.74 KB
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