/gannet/Atumefaciens/20190723_stringtie_pgen_v070/

Use of Hisat2 and Stringtie to ID alternative isoforms in Panopea generosa transcriptome.

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FILES

- 20190723_stringtie_pgen_v070.sh: SBATCH script for running job on Mox.

- fastq.list.txt: List of input FastQ files used.

- [GN][eR]oduck*.gtf: Individual GTF files produced by Hisat2.

- [GN][eR]oduck*_hisat2.err: Individual Hisat2 standard error (text).

- [GN][eR]oduck*.sorted.bam: Individual, sorted BAM files.

- [GN][eR]oduck*.sorted.bam.bai: Individual BAM index files.

- gtf_list.txt: List of individual GTF files used to create Pgenerosa_v074.stringtie.gtf.

- Pgenerosa_v070.stringtie.gtf: Merged GTF from all individual GTFs.

- slurm-1063741.out: Mox standard out/error.

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


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Notebook:

https://robertslab.github.io/sams-notebook/2019/07/23/Genome-Annotation-Pgenerosa_v070-Hisat2-Transcript-Isoform-Index.html