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BUSCO_hap12primarychromosomes.pbs
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BUSCO_hap12primarychromosomes.pbs
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#!/bin/bash
#PBS -q condo05
#PBS -l select=1:ncpus=64:mem=500GB
#PBS -l walltime=168:00:00
#PBS -W group_list=x-ccast-prj-hulke
#PBS -N BUSCO_Chromosomes
# Load conda environment
source /mmfs1/home/brian.smart/miniconda3/bin/activate busco
#Load working directory
cd /mmfs1/home/brian.smart/projects/MutagenesisSmart/HudsonAlpha/BUSCOvisual/BUSCO_chromosomesOnly
#Run busco
busco -i /mmfs1/home/brian.smart/projects/MutagenesisSmart/HudsonAlpha/ChrLabels17Scaffs3Assemblies/Hap1_TrioScaffolds_10Mb_6seqs_ChromosomeLabels.fa \
-m genome \
-c 64 \
-l embryophyta_odb10 \
--offline \
-o BUSCO_Hap1Chr6_embryophta_odb10
#Run busco
busco -i /mmfs1/home/brian.smart/projects/MutagenesisSmart/HudsonAlpha/ChrLabels17Scaffs3Assemblies/Hap1_TrioScaffolds_10Mb_6seqs_ChromosomeLabels.fa \
-m genome \
-c 64 \
-l eudicots_odb10 \
--offline \
-o BUSCO_Hap1Chr6_eudicots_odb10
#Run busco
busco -i /mmfs1/home/brian.smart/projects/MutagenesisSmart/HudsonAlpha/ChrLabels17Scaffs3Assemblies/Hap2_TrioChromosomes_10Mb_17seqs_ChromosomeLabels.fa \
-m genome \
-c 64 \
-l embryophyta_odb10 \
--offline \
-o BUSCO_Hap2Chr17_embryophta_odb10
#Run busco
busco -i /mmfs1/home/brian.smart/projects/MutagenesisSmart/HudsonAlpha/ChrLabels17Scaffs3Assemblies/Hap2_TrioChromosomes_10Mb_17seqs_ChromosomeLabels.fa \
-m genome \
-c 64 \
-l eudicots_odb10 \
--offline \
-o BUSCO_Hap2Chr17_eudicots_odb10
#Run busco
busco -i /mmfs1/home/brian.smart/projects/MutagenesisSmart/HudsonAlpha/ChrLabels17Scaffs3Assemblies/Primary_OmniCScaffolds_10Mb_17seqs_ChromosomeLabels.fa \
-m genome \
-c 64 \
-l embryophyta_odb10 \
--offline \
-o BUSCO_PrimaryChr17_embryophta_odb10
#Run busco
busco -i /mmfs1/home/brian.smart/projects/MutagenesisSmart/HudsonAlpha/ChrLabels17Scaffs3Assemblies/Primary_OmniCScaffolds_10Mb_17seqs_ChromosomeLabels.fa \
-m genome \
-c 64 \
-l eudicots_odb10 \
--offline \
-o BUSCO_PrimaryChr17_eudicots_odb10