Repository codon_analysis
Owner: jamueller
Synopsis: GeCoS calculates the codon composition in a DNA sequence.
What it does
GeCos is a tool that calculates the codon composition of any given DNA sequence. 

Input
- If more than one sequence is analyzed at a time, a cutoff value can be used to filter the output. Only the sequences with a higher total score than the cutoff value will be displayed in the output.
- The DNA sequence(s), that are supposed to be analyzed with GeCoS need to be formatted as fasta.

Output
- GeCoS produces a matrix containing the identifier used in the input, the combined score of the sequence and the number of each of the chosen codons.
- Total Score = sum of codon occurences / sequence length * number of analyzed codons
- The output is sorted from low to high (Total Score: 0 to 1).

Example:
[['Gene_ID' 'Total Score' 'AGG' 'AGC' 'CCC' 'TGC' 'GCG']
['CCE57562' 0.0190476 1 3 1 2 1]
['CCQ29559' 0.0190476 0 1 2 2 1]
...
['CCQ31238' 0.0328358 0 3 0 6 2]
['CCE57539' 0.05 2 0 4 3 3]]
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Development repository: -
Type: unrestricted
Revision: 1:e8c8bf56aab0
This revision can be installed: True
Times cloned / installed: 147

Contents of this repository

Name Description Version Minimum Galaxy Version
(GeneCodonSearch) calculates the codon composition in a DNA sequence. 1.0.0 16.01

Categories
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis
Statistics - Tools for generating statistics