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Results for "
Remove
"
Wire posts
Rahul Nayak
@rahul
Remove
unwanted character from fasta file. sed -e '/^[^>]/s/[^ATGCatgc]/N/g' file.fa #fasta #file #header #charater
2497 days ago
Rahul Nayak
@rahul
Remove
"|" from fasta header. $ sed 's,|,_,g' -i file.fa #fasta #header #sed
2497 days ago
Jit
@jit.aber
Remove
unwanted character from fasta file. $ sed -e '/^[^>]/s/[^ATGCatgc]/N/g' file.fa #IUPAC #Special #Character #
Remove
2485 days ago
Jit
@jit.aber
Remove
duplicated lines from text file. $ awk '!seen[$0]++' allIds #duplicate #lines #
remove
#awk
2475 days ago
Jit
@jit.aber
Example commands to
remove
lower-case masking: perl -pe '/^[^>]/ and $_=uc' genomic.fna > genomic.unmasked.fna
2380 days ago
Radha Agarkar
@radhaagarkar
Remove
the fasta with zero size: awk 'BEGIN {RS = ">" ; FS = "\n" ; ORS = ""} $2 {print ">"$0}' input.fas > output.fas #fasta #
remove
2360 days ago
Surabhi Chaudhary
@surabhi
Remove
the unwanted characters from Fasta file: sed -e '/^[^>]/s/[^ATGCatgc]/N/g' infile.fa #sed #unwanted #illegal #
remove
#correct #fasta #linux
2360 days ago
Poonam Mahapatra
@poonam
Remove
duplicate fasta ids: awk '/^>/{f=!d[$1];d[$1]=1}f' in.fa > out.fa #duplicate #fasta #ids
2352 days ago
Jit
@jit.aber
awk 'BEGIN {RS = ">" ; FS = "\n" ; ORS = ""} {if ($2) print ">"$0}' all_p_ctg.fa > all_p_ctg_CORRECTED.fa #
remove
#empty #clean #fasta
2349 days ago
Jit
@jit.aber
#
Remove
a #sequence by id from multifasta: cat vaga.fa | awk '{if (substr($0,1) == ">scaffold_1 1087316 bp") censor=1; else if (substr($0,1,1) == ">") censor=0; if (censor==0) print $0}' > fixed.fasta
2349 days ago
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