JAVA_SourceCode

2018-04-04T21:05:43Z (GMT) by Alan R. Lemmon Emily Moriarty Lemmon
Compressed directory holding A.R.L (alemmon@evotutor.org) java source code This directory contains readme and instructions for use and to compile the java code for IdentifySpacedKmers7, QuickScan5, and ShallowMapper4. It also contain the Lep1_ProbeDesign directory used with the java programs to design the Lep1 probe set (IdentifySpacedKmers7, IdentifySpacedKmers7_readme.txt, Lep1_ProbeDesign, LepRefFiles.txt, QuickScan5_readme.txt, QuickScan5.java, ShallowMapper4_readme.txt, ShallowMapper4.java) ShallowMapper4: java script by A.R.L used to identify intron boundaries in genes for five reference taxa by mapping raw genomic reads to the corresponding transcriptomic sequences QuickScan5: java script by A.R.L used to scan the additional 23 transcriptomes and ESTs by generating reference kmers using the 5-species alignments and using those kmers to map contig sequences from the transcriptomes to the candidate locus set