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Code Block |
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language | bash |
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theme | Midnight |
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title | dmd.pbs |
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#!/bin/bash
#PBS -N dmd-cluster
#PBS -l select=1:ncpus=12:mem=64GB
#PBS -q cpu
cd $PBS_O_WORKDIR
module load scientific/DIAMOND/2.1.8
diamond cluster -d astral-scopedom-seqres-gd-sel-gs-bib-95-2.07.fa -o clusters.tsv --approx-id 40 --threads $NCPUS --memory-limit 64G --header |
Dostupne baze za korištenje
Baze se nalaze u $BLASTDB varijabli
- nr/nr
- nr/nr_tax - baza sa taksonomskim značajkama
- swissprot/swissprot
- nt/nt_fa/nt
- pfam/Pfam-A.fasta
- cog/cog-20.fa
Code Block |
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language | bash |
---|
theme | Midnight |
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title | dmd.pbs |
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|
#!/bin/bash
#PBS -N dmd-blastp
#PBS -l select=1:ncpus=12:mem=64GB
#PBS -q cpu
cd $PBS_O_WORKDIR
module load scientific/DIAMOND/2.1.8
diamond blastp -d $BLASTDB/swissprot/swissprot -q protein.fa -o matches_swissprot.tsv --threads $NCPUS |