omatheuspimenta / BiB_BASiNET_correction

Repository containing the files relative to the correction of the assessment of the BASiNET method published in the article "A systematic evaluation of the computational tools for lncRNA identification", Briefings in Bioinformatics, Volume 22, Issue 6, November 2021. DOI: https://doi.org/10.1093/bib/bbab285

Correction to: A systematic evaluation of the computational tools for lncRNA identification

DOI: 10.1093/bib/bbab285

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The BASiNET package documentation available on CRAN has a vignette and a file with the documentation for each function explaining the correct way to execute the method, available at: CRAN BASiNET

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Execution

library("BASiNET")
mRNA <- "gencode.v32.pc_transcripts.fa"
lncRNA <- "gencode.v32.lncRNA_transcripts.fa"
res <- classification(mRNA,lncRNA,save="HA1.dat")

The "save" option was used only for the purpose of saving the model and feature matrix extracted from this database.

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Folders

• datasets: contains the HA1 dataset
• execution_logs: contains the execution log for the HA1 dataset
• feature_matrices: contains the feature matrix obtained in HA1 dataset
• models: contains the model obtained in HA1 dataset training step
• scripts: contains the R script executed in HA1 dataset

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