bin/Build_Trinotate_Boilerplate_SQLite_db.pl
bin/DeepTmHMM_instance_launcher.pl
bin/EMBL_dat_to_Trinotate_sqlite_resourceDB.pl
bin/EMBL_swissprot_parser.pl
bin/PFAM_dat_parser.pl
bin/PFAMtoGoParser.pl
bin/PerlLib/DelimParser.pm
bin/PerlLib/EMBL_parser.pm
bin/PerlLib/Fasta_reader.pm
bin/PerlLib/GFF3_utils.pm
bin/PerlLib/GO_DAG.pm
bin/PerlLib/GTF.pm
bin/PerlLib/GTF_utils.pm
bin/PerlLib/Gene_obj.pm
bin/PerlLib/Gene_obj_indexer.pm
bin/PerlLib/IniReader.pm
bin/PerlLib/Longest_orf.pm
bin/PerlLib/Nuc_translator.pm
bin/PerlLib/Overlap_piler.pm
bin/PerlLib/Pipeliner.pm
bin/PerlLib/Process_cmd.pm
bin/PerlLib/Sqlite_connect.pm
bin/PerlLib/TextCache.pm
bin/PerlLib/Thread_helper.pm
bin/PerlLib/TiedHash.pm
bin/PerlLib/Trinotate.pm
bin/PerlLib/obo/go-basic.obo.gz
bin/PerlLib/obo/goslim_generic.obo.gz
bin/PerlLib/obo/notes
bin/PerlLib/test_GO_DAG.pl
bin/RnammerTranscriptome.pl
bin/Trinotate
bin/TrinotateSeqLoader.pl
bin/Trinotate_BLAST_loader.pl
bin/Trinotate_DeepTmHMM_loader.pl
bin/Trinotate_EggnogMapper_loader.pl
bin/Trinotate_GO_to_SLIM.pl
bin/Trinotate_GTF_loader.pl
bin/Trinotate_GTF_or_GFF3_annot_prep.pl
bin/Trinotate_Infernal_loader.pl
bin/Trinotate_PFAM_loader.pl
bin/Trinotate_RNAMMER_loader.pl
bin/Trinotate_SIGNALP_loader.pl
bin/Trinotate_TmHMMv2_loader.pl
bin/Trinotate_get_feature_name_encoding_attributes.pl
bin/Trinotate_report_writer.pl
bin/__nope-run_DeepTmHMM.pl
bin/assign_eggnog_funccats.pl
bin/build_DE_cache_tables.pl
bin/cleanMe.pl
bin/count_table_fields.pl
bin/create_clusters_tables.pl
bin/extract_GO_assignments_from_Trinotate_xls.pl
bin/extract_GO_for_BiNGO.pl
bin/extract_specific_genes_from_all_matrices.pl
bin/import_DE_results.pl
bin/import_Trinotate_xls_as_annot.pl
bin/import_expression_and_DE_results.pl
bin/import_expression_matrix.pl
bin/import_samples_n_expression_matrix.pl
bin/import_samples_only.pl
bin/import_transcript_annotations.pl
bin/import_transcript_clusters.pl
bin/import_transcript_names.pl
bin/init_Trinotate_sqlite_db.pl
bin/make_cXp_html.pl
bin/map_all_GO_ids_to_slim.pl
bin/obo_tab_to_sqlite_db.pl
bin/obo_to_tab.pl
bin/prep_nuc_prot_set_for_trinotate_loading.pl
bin/print.pl
bin/rnammer_supperscaffold_gff_to_indiv_transcripts.pl
bin/runMe.pl
bin/run_TrinotateWebserver.pl
bin/run_cluster_functional_enrichment_analysis.pl
bin/shrink_db.pl
bin/sqlite.pl
bin/superScaffoldGenerator.pl
bin/test_Barplot.pl
bin/test_GO_DAG.pl
bin/test_GenomeBrowser.pl
bin/test_Heatmap.pl
bin/test_Lineplot.pl
bin/test_Piechart.pl
bin/test_Scatter2D.pl
bin/test_Sunburst.pl
bin/trinotate_report_summary.pl
bin/update_seq_n_annotation_fields.pl
lib/perl5/5.32/site_perl/auto/BiocondaPerlExecs/.packlist
lib/perl5/site_perl/DelimParser.pm
lib/perl5/site_perl/EMBL_parser.pm
lib/perl5/site_perl/Fasta_reader.pm
lib/perl5/site_perl/GFF3_utils.pm
lib/perl5/site_perl/GO_DAG.pm
lib/perl5/site_perl/GTF.pm
lib/perl5/site_perl/GTF_utils.pm
lib/perl5/site_perl/Gene_obj.pm
lib/perl5/site_perl/Gene_obj_indexer.pm
lib/perl5/site_perl/IniReader.pm
lib/perl5/site_perl/Longest_orf.pm
lib/perl5/site_perl/Nuc_translator.pm
lib/perl5/site_perl/Overlap_piler.pm
lib/perl5/site_perl/Pipeliner.pm
lib/perl5/site_perl/Process_cmd.pm
lib/perl5/site_perl/Sqlite_connect.pm
lib/perl5/site_perl/TextCache.pm
lib/perl5/site_perl/Thread_helper.pm
lib/perl5/site_perl/TiedHash.pm
lib/perl5/site_perl/Trinotate.pm
man/man3/Gene_obj.3
man/man3/Nuc_translator.3
trinotate-testing/cleanme.pl
trinotate-testing/input_data/DESeq2_gene.tar.gz
trinotate-testing/input_data/DESeq2_trans.tar.gz
trinotate-testing/input_data/Trinity.fasta.gene_to_trans_map.gz
trinotate-testing/input_data/Trinity.fasta.gz
trinotate-testing/input_data/Trinity.fasta.transdecoder.pep.gz
trinotate-testing/input_data/Trinity_genes.TMM.EXPR.matrix.gz
trinotate-testing/input_data/Trinity_genes.counts.matrix.gz
trinotate-testing/input_data/Trinity_trans.TMM.EXPR.matrix.gz
trinotate-testing/input_data/Trinity_trans.counts.matrix.gz
trinotate-testing/input_data/samples.txt.gz
trinotate-testing/runMe.Docker.sh
trinotate-testing/runMe.Singularity.sh
trinotate-testing/runMe.add_expression_prep_TrinotateWeb.sh
trinotate-testing/runMe.sh
