Results for "sed"
Bio-Scripts
Installing Covid19 Environment !
...########################################################################################################################################## | 100% sed-4.8 | 264 KB...927 days ago
Extract the sequences with IDs !
#sed -i 's/\_/ /g' Delta_seqID_from_lineage_report.txt seqtk subseq genomic.fna Delta_seqID_from_lineage_report.txt > Delta.fasta #Split the fasta in 11 equal sequences subsets pyfasta split -n 11 Delta.fasta854 days ago
Commands to Find and replace in file(s0) !
#Use SED sed -i 's/my/your/g' test.txt test2.txt test3.txt #Use FIND and SED find . -name *.txt -exec sed -i 's/my/your/g' {} \; #Use AWK awk '{sub(/{OLD_TERM}/,{NEW_TERM}); print}' {file} awk '{sub(/my/,your); print}' test.txt awk '{gsub(/i/,"a"); print}' test.txt773 days ago
Bash command to explore assembly summary genbank !
wget https://ftp.ncbi.nlm.nih.gov/genomes/genbank/assembly_summary_genbank.txt pip3 install csvkit csvcut -t -K 1 -c 'excluded_from_refseq' assembly_summary_genbank.txt \ | tail -n +2 | tr ";" "\n" \ | sed -e 's/^ //' -e 's/ $//' | grep -v '""' \ | sort | uniq -c | sort -nr772 days ago
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