stalcalc specifications
- Unique identifier:
- OMICS_13436
- Restrictions to use:
- None
- Input format:
- FASTA
- Output format:
- CSV
- Stability:
- Stable
- Interface:
- Web user interface
- Input data:
- The user should provide a text file containing the organism genes' coding sequences.
- Output data:
- The tAI values of the input coding sequences and the wi values of each codon.
- Computer skills:
- Basic
- Maintained:
- No
stalcalc specifications
- Unique identifier:
- OMICS_13436
- Interface:
- Graphical user interface
- Input data:
- The first input is a file containing the organism coding sequence(s). The second input is a text file containing a list of anticodons (representing the different tRNA types) and their corresponding tRNA levels.
- Output data:
- Two output files are provided by stAIcalc application: output_tAI_file.txt (contains the names of the input genes and their resultant tAI values based on the species-specific inferred weights.) and output_tAI_file.txt (contains the weights for each codon.)
- Operating system:
- Unix/Linux, Mac OS, Windows
- Stability:
- Stable
- Maintained:
- No
- Software type:
- Application/Script
- Restrictions to use:
- None
- Input format:
- FASTA
- Output format:
- TXT
- Computer skills:
- Medium
- Requirements:
- MATLAB runtime
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Publications
-
(Sabi et al., 2016)
stAIcalc: tRNA adaptation index calculator based on species-specific weights.
Bioinformatics.
PMID: 27797757
Institution(s)
Department of Biomedical Engineering, Tel Aviv University, Ramat Aviv, Israel; The Sagol School of Neuroscience, Tel Aviv University, Ramat Aviv, Israel
Funding source(s)
This work was supported by the Edmond J Safra Bioinformatics center at Tel Aviv University
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