gannet/Athaliana/20200731_metagenome_hisat2_alignments

*.ht2: Hisat2 index files for 20190103-mgm.fa.

20200731_metagenome_hisat2_alignments.sh: SBATCH script used to run job on Mox.

fasta.checksums.md5: Checksum for 20190103-mgm.fa used in Hisat2 index build.

*.bai: BAM index files

*.sorted.bam: Sorted BAM files.

*.sorted.bam.stats.txt: Samtools idxstats output file. Format:
<sequence name> <sequence length> <# mapped read-segments> <# unmapped read-segments>

*.alignment_stats.txt: Hisat2 output file describing alignment results.

*.fastq.list.txt: List of FastQs used for Hisat2 alignment.

program_options.log: List of options for each program used.

*.out: SLURM output files. One contains log of Hisat2 index build. Other contains remaining command logs.

system_path.log: Log of contents of Sam's system $PATH.