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Update ONT_pilot_w_GDB_samples authored by Susheel Busi's avatar Susheel Busi
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ONT_pilot_w_GDB_samples.md
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......@@ -507,6 +507,8 @@ cd /mnt/lscratch/users/sbusi/ONT/cedric_ont_basecalling/2019_GDB/
mkdir quast_methylation_aware
cd quast_methylation_aware
ln -s ../results/assembly/*.fa .
ln -s ../results/assembly/metaspades/ONT3_MG_xx_Rashi_S11/final.contigs.fna metaspades.fa
rm bwa* mmi* # removing non-essential files
metaquast.py --max-ref-number 0 --threads 24 *fa -o methylation_2019_quast_results
......@@ -517,6 +519,8 @@ cd /mnt/lscratch/users/sbusi/ONT/cedric_ont_basecalling/2019_GDB/
mkdir quast_non_mod
cd quast_non_mod
ln -s ../non_methylation_aware_results/assembly/*.fa .
ln -s ../non_methylation_aware_results/assembly/metaspades/ONT3_MG_xx_Rashi_S11/final.contigs.fna metaspades.fa
rm bwa* mmi* # removing non-essential files
metaquast.py --max-ref-number 0 --threads 24 *fa -o non_mod_2019_quast_results
# downloaded both the folders to desktop at ~/Documents/Nanopore_ONT/.
......