Bioinformatics_scripts_Perl

This repo contains several Perl scripts developed to deal with bioinformatics data and software. Fell free to retrieve anything useful!

Name		Name	Last commit message	Last commit date
FastA.subsample.pl		FastA.subsample.pl
README.md		README.md
combine_families_and_fasta.pl		combine_families_and_fasta.pl
edit_gtf.pl		edit_gtf.pl
evm2stringtie_format.pl		evm2stringtie_format.pl
extract_fasta.pl		extract_fasta.pl
fasta-splitter.pl		fasta-splitter.pl
filter_evm_masked.pl		filter_evm_masked.pl
filter_fasta_length.pl		filter_fasta_length.pl
filter_pasa_masked.pl		filter_pasa_masked.pl
filter_primaryT_fasta.pl		filter_primaryT_fasta.pl
fix_sra_header.pl		fix_sra_header.pl
gene_stats.pl		gene_stats.pl
gene_stats_introns.pl		gene_stats_introns.pl
genome_size.pl		genome_size.pl
get_contig_length.pl		get_contig_length.pl
gff3_fasta_extractor.pl		gff3_fasta_extractor.pl
gff3_fasta_extractor_pasa.pl		gff3_fasta_extractor_pasa.pl
gff3_fasta_extractor_repeatMasker.pl		gff3_fasta_extractor_repeatMasker.pl
gth2protein_alignment.pl		gth2protein_alignment.pl
haplotipic_annotation_merger.pl		haplotipic_annotation_merger.pl
list_diff.pl		list_diff.pl
make_cov_plots.pl		make_cov_plots.pl
mix_tbl_kinases.pl		mix_tbl_kinases.pl
parse_diamond.pl		parse_diamond.pl
parse_dup_contigsNbuscos.pl		parse_dup_contigsNbuscos.pl
parse_hmmsearch.pl		parse_hmmsearch.pl
parse_lastz_dup_contigs.pl		parse_lastz_dup_contigs.pl
parse_pilon_changes.pl		parse_pilon_changes.pl
parse_repeat_bins.pl		parse_repeat_bins.pl
parse_repeat_distribution_in_bins.pl		parse_repeat_distribution_in_bins.pl
parse_tblastn_unmapped_reads.pl		parse_tblastn_unmapped_reads.pl
parse_unmapped_reads_duplicated_busco_difference.pl		parse_unmapped_reads_duplicated_busco_difference.pl
parse_unmapped_reads_duplicated_busco_difference_v2.0.pl		parse_unmapped_reads_duplicated_busco_difference_v2.0.pl
parse_unmapped_reads_duplicated_buscos.pl		parse_unmapped_reads_duplicated_buscos.pl
parse_unmapped_reads_duplicated_buscos_v2.0.pl		parse_unmapped_reads_duplicated_buscos_v2.0.pl
parse_unmapped_reads_masking.pl		parse_unmapped_reads_masking.pl
parse_unmapped_reads_masking_results.pl		parse_unmapped_reads_masking_results.pl
parse_unmapped_reads_masking_results_v2.pl		parse_unmapped_reads_masking_results_v2.pl
parse_winmasker_pacbio.pl		parse_winmasker_pacbio.pl
protein_alignment_format.pl		protein_alignment_format.pl
softMask_from_gff.pl		softMask_from_gff.pl
split_delta_mummer.pl		split_delta_mummer.pl
stringtie_expression_matrix.pl		stringtie_expression_matrix.pl

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