Bioinformatics Programming
Perl script to find duplicate FASTA sequences using their header?
In a large file of FASTA sequences, it is nearly impossible to perform some operations manually.
This is a simple Perl script to find out duplicate sequences in a multi-fasta file using a FASTA header.
Let’s say, your multi-fasta file is ‘sequence.fasta’.
#! /usr/bin/perl
use warnings;
use strict;
my ($infile, $header) = @ARGV;
my $duplicate;
open my $input, '<', $infile or die $!;
while (<$input>) {
$duplicate = $1 eq $header if /^>(.*)/;
print if $duplicate;
}
close $input;
exit;
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Bioinformatics Programming
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Bioinformatics Programming
vs_analysis_compound.py: Python script to search for binding affinities based on compound names.
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Bioinformatics Programming
tanimoto_similarities_one_vs_all.py – Python script to calculate Tanimoto Similarities of multiple compounds
We previously provided a Python script to calculate the Tanimoto similarities of multiple compounds against each other. In this article, we are providing another Python script to calculate the Tanimoto similarities of one compound with multiple compounds. (more…)
Bioinformatics Programming
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RDKit [1] is a very nice cheminformatics software. It allows us to perform a wide range of operations on chemical compounds/ ligands. We have provided a Python script to perform fingerprinting using Tanimoto similarity on multiple compounds using RDKit. (more…)
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Bioinformatics Programming
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Bioinformatics Programming
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