/gannet/Atumefaciens/20190318_transdecoder_geoduck_gonad_01_RNAseq Part of geoduck adult gonad transcriptome assembly and annotation. Assembly done on 20190215: https://robertslab.github.io/sams-notebook/2019/02/15/Transcriptome-Assembly-Geoduck-Tissue-Specific-Assembly-Gonad.html Ran Transdecoder on Mox for open reading frame identification. --- FILES - 20190318_transdecoder_geoduck_gonad_01_RNAseq.sh: - blastp_out: BLASTp output directory. - pfam_out: Pfam output directory. - pipeliner.*.cmds: Transdecoder command log files. - slurm-*.out: SLURM output files (i.e. stderr/stdout). - system_path.log: Contents of Sam's Mox system $PATH. - Trinity.fasta.transdecoder.bed: Bedgraph output. - Trinity.fasta.transdecoder.cds: FastA of coding sequences. - Trinity.fasta.transdecoder_dir: Transdecoder output directory for identifying longest open reading frames. - Trinity.fasta.transdecoder_dir.__checkpoints: Transdecoder output directory for intermediate checkpoint files. - Trinity.fasta.transdecoder_dir.__checkpoints_longorfs: Transdecoder output directory for intermediate checkpoint files. - Trinity.fasta.transdecoder.gff3: GFF output. - Trinity.fasta.transdecoder.pep: FastA of peptide sequences. --- Notebook: https://robertslab.github.io/sams-notebook/2019/03/18/Transcriptome-Annotation-Geoduck-Gonad-with-Transdecoder-on-Mox.html