Korištenje:
Dostupne verzije i moduli
| Verzije | Module |
|---|---|
| RepeatModeler2 2.0.4 RepeatMasker 4.1.5 RepeatExplorer2 2.3.8 | bioinfo/RepeatTools/repeat_env |
Primjeri aplikacija:
Testni podaci: https://www.ncbi.nlm.nih.gov/datasets/taxonomy/9785/
RepeatModeler2
#!/bin/sh #$ -N modeler #$ -pe *mpisingle 20 #$ -cwd module load bioinfo/RepeatTools/repeat_env #Prije pokretanja potrebno je kreirati bazu BuildDatabase -name elephant GCF_000001905.1_Loxafr3.0_genomic.fna RepeatModeler -database elephant -threads $NSLOTS -LTRStruct >& run.out
RepeatMasker
#!/bin/sh #$ -N masker #$ -pe *mpisingle 20 #$ -cwd module load bioinfo/RepeatTools/repeat_env RepeatMasker --species Loxodonta_africana GCF_000001905.1_Loxafr3.0_genomic.fna -pa $NSLOTS
RepeatExplorer2
#!/bin/sh #$ -N explorer #$ -pe *mpisingle 20 #$ -cwd module load bioinfo/RepeatTools/repeat_env seqclust -c $NSLOTS GCF_000001905.1_Loxafr3.0_genomic.fna