GenePrediction: Predicted Genes of Aragorn and tRNAScan-SE, Script for integrating them and the integrated_tse_ara.txt
GeneAnnotation: 
 		SubFolder GeneAnnotation/script: The script FinalGeneSetAnnotation to make the visualization of the Leish Manuscript with Rmd file
				  The unused alignment script! 
			  GeneAnnotation/: TRNA2-euk.cm, hg38-tRNAs.fa and a bunch of fasta file which are outputs/inputs of Alignment script
tsfm: some of the old outputs of tsfm. needs to be replaced with the SOM from the manuscript