hello, i have a hash table and i want transform this into an output which i could use in a R script. i use Text::table but i cant find a solution to have a good column separator (tab or pipe) this my code : 

my %hash_sample_cds_genotype;
my %hash_sample_cds_RT;
my %hash_sample_cds_R1;
my %hash_sample_cds_R2;


#String des fichiers inputs
foreach my $fichier (@fichiers)
{
    my $sample_name;
#alimentation du hash de resultat avec cette echatillon

    open(RESULTAT,"<$fichier") or die ("Cannot open $fichier\n");

    while (defined(my $_ = <RESULTAT>))
    {
        $sample_name = $fichier;
        my @attribut_name = split(m/out_/,$sample_name);
        $sample_name = $attribut_name[1];
        my @resutat_infos = split(m/\t/,$_);
        next if ($_ =~ m/^CDS/);        
        chomp($_);
        my $cds = $resutat_infos[0];
        my $genotype = $resutat_infos[1]."/".$resutat_infos[2];
        my $reads_p1 =$resutat_infos[3];
        my $reads_p2 =$resutat_infos[4];
        my $reads_totaux =$resutat_infos[6];
        $hash_sample_cds_genotype{$sample_name}{$cds} = $genotype ;
        $hash_sample_cds_RT{$sample_name}{$cds} = $reads_p1 ;
        $hash_sample_cds_R1{$sample_name}{$cds} = $reads_p2 ;
        $hash_sample_cds_R2{$sample_name}{$cds} = $reads_totaux ;
    }

    close(RESULTAT);
}

#alimentation des fichier de resultats GENOTYPE

my @cols1 = sort keys (%hash_sample_cds_genotype );
my @rows1 = sort keys %
{ 
    {
        map 
        {
            my $x = $_;
            map { $_ => undef }
            keys $hash_sample_cds_genotype{$x}
        } 
    @cols1 
    } 
};
    
my $out1 = Text::Table->new(' ', @cols1);
for my $r1 (@rows1)
{
    $out1->add($r1, map $hash_sample_cds_genotype{$_}{$r1} // 'NA', @c
+ols1);
}
print OUTPUT1 $out1;

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Any idea ?

In reply to transform a hash table into R dataframe or matrix with tab separator by etricaen

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