owl/Athaliana/20180926_oly_RNAseq_genome_hisat2_bedgraph Alignment of Olympia oyster RNAseq data to Olympia oyster genome (Olurida_v080) using HISAT2 and subsequent production of a bedgraph. -------------------------------------------------------------------------------- FILES: - 20180926_Olurida_v080.bam: BAM file, converted from original SAM file, using SAMtools. - 20180926_Olurida_v080.sam: HISAT2 SAM file alignment output. - 20180926_Olurida_v080.sorted.bam: Sorted BAM file. - 20180926_Olurida_v080.sorted.bam.bai: Sorted and indexed BAM file for IGV usage. - 20180926_oly_RNAseq_genome_hisat2_bedgraph: Bedgraph file for alignment visualization in IGV. - 20180926_oly_RNAseq_genome_hisat2_bedgraph.sh: SBATCH Mox script. Contains commands and list of input files for HISAT2 RNAseq alignment to Olurida_v080 genome and production of a bedgraph file. Includes commands for indexing genome. - *ht*: HISAT2 genome index files. - slurm-322772.out: SLURM output file. - system_path.log: A text file attempting to document various program versions being used by Mox.