Module Detail Information

Name:Compseq
Type: Module
Short URL:
http://bit.ly/1B7EdoP
Description:compseq calculates the composition of words of a specified length (dimer, trimer etc) in the input sequence(s). The word length is user-specified. The unique sequences (words), their observed count, observed frequency, expected frequency and (observed / expected) frequency are written to the output file. The (observed / expected) frequency highlights any words with unusually high (or low) occurence in the input sequences.
Executable:
/compseq
Input Parameters:
 - Sequences
 - 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
 - Version
 - Size of Word
 - Input File
 - Frame
 - Don't Ignore B and Z
 - Count Reverse Words
 - Calculate Frequencies
 - No Zero Counts
Output Parameters:
 - Output Directory
 - Output File
File size:28.08 KB
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