Reduce FASTA file name
I have more than 60000 fasta file and which having long name like
BA000031.2_ID=gene0_Name=VP0001_gbkey=Gene_gene=VP0001_gene_biotype=protein_coding.fasta
BA000031.2_ID=gene8_Name=VP0009_gbkey=Gene_gene=VP0009_gene_biotype=protein_coding.fasta
and I want to change like this
VP0001.fasta
VP0009.fasta
like this for all 60000 files how it possible
2 answers
Use the rename command. Check man rename for available options (rename comes with perl and newer perls have more options).
• 0 views
•
link
written
by
Jean-Karim Heriche
I'm sure there's an elegant awk solution out there but here's my somewhat shitty loop for it. It assumes all files keep the same structure as the ones you've posted.
for f in *_coding.fasta; do new="$(echo $f | tr '=' '_' | cut -d '_' -f 5)"; mv $f $new.fasta; done
Log in to answer this question.
More posts like this
-
Creating a sample specific directory on the go while using -wget command to download the files
written by Hrituraj •
-
Change headers of hundreds fasta files
written by Oscar •
-
Snakemake wildcard usage
written by devon.orourke •
-
fasta file to tab delimited file
written by nakanomasayuki265 •
-
extract same all similar sequences in FASTA based on the header
written by Eva_Maria
-
Change header of a Fasta file according to the file name
written by Eva_Maria
-
Minimize blast extraction time
written by Eva_Maria
-
extract sequences from a fasta file and save into different files
written by Eva_Maria
-
batch blast programme
written by Eva_Maria
-
Create Files From Double For Cycle
written by filipzembol
