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Evaluation of a Permutation-Based Evolutionary Framework for Lyndon Factorizations
This is the code repository for the paper (https://doi.org/10.1007/978-3-030-58112-1_27).
We use data from NCBI RefSeq (see prokaryotes.csv) in amino acid format. From the NCBI genome list, FTP URLs are shown to download the files. The amino acid format files end in "_protein.faa.gz".
Data is available at https://doi.org/10.20391/e74e16cc-aa91-41b2-99d7-04465c23cf0a. The list of genomes we used for the testing of the minimisation of the number of Lyndon factors and balancing the length of Lyndon factors is in testingGenomeList. The name of the genome we used for finding the mutation operator to use for the EA is in trainingGenome.
In our code, ModifiedDuvals was the working name of Flexi-Duval. Similarly, ModifiedDuvalsOperator refers to the LF-inspired operator.
NCBI have reduced the number of reference genomes https://ncbiinsights.ncbi.nlm.nih.gov/2020/02/14/assembly-changes/.
This is the code repository for the paper (https://doi.org/10.1007/978-3-030-58112-1_27).
We use data from NCBI RefSeq (see prokaryotes.csv) in amino acid format. From the NCBI genome list, FTP URLs are shown to download the files. The amino acid format files end in "_protein.faa.gz".
Data is available at https://doi.org/10.20391/e74e16cc-aa91-41b2-99d7-04465c23cf0a. The list of genomes we used for the testing of the minimisation of the number of Lyndon factors and balancing the length of Lyndon factors is in testingGenomeList. The name of the genome we used for finding the mutation operator to use for the EA is in trainingGenome.
In our code, ModifiedDuvals was the working name of Flexi-Duval. Similarly, ModifiedDuvalsOperator refers to the LF-inspired operator.
NCBI have reduced the number of reference genomes https://ncbiinsights.ncbi.nlm.nih.gov/2020/02/14/assembly-changes/.
| Dyddiad y'i gwnaethpwyd ar gael | 05 Medi 2020 |
|---|---|
| Cyhoeddwr | Prifysgol Aberystwyth | Aberystwyth University |
| Diwedd cynhyrchu data | 27 Mai 2020 |
Allbwn Ymchwil
- 1 Trafodion Cynhadledd (Nid-Cyfnodolyn fathau)
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Evaluation of a Permutation-Based Evolutionary Framework for Lyndon Factorizations
Major, L., Clare, A., Daykin, J., Mora, B., Peña Gamboa, L. & Zarges, C., 31 Awst 2020, Parallel Problem Solving from Nature – PPSN XVI - 16th International Conference, PPSN 2020, Proceedings: 16th International Conference, Leiden, The Netherlands, September 5-9, 2020, Proceedings. Bäck, T., Preuss, M., Deutz, A., Emmerich, M., Wang, H., Doerr, C. & Trautmann, H. (gol.). Springer Nature, t. 390-403 14 t. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Cyfrol 12269 LNCS).Allbwn ymchwil: Pennod mewn Llyfr/Adroddiad/Trafodion Cynhadledd › Trafodion Cynhadledd (Nid-Cyfnodolyn fathau)
Mynediad agoredFfeil3 Dyfyniadau (Scopus)169 Wedi eu Llwytho i Lawr (Pure)
Setiau Data
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Supporting Information for Evaluation of a Permutation-Based Evolutionary Framework for Lyndon Factorizations - Data
Major, J. A., Clare, A., Daykin, J., Mora, B., Peña Gamboa, L. & Zarges, C., Prifysgol Aberystwyth | Aberystwyth University, 05 Medi 2020
Dangosydd eitem ddigidol (DOI): 10.20391/e74e16cc-aa91-41b2-99d7-04465c23cf0a
Set ddata
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