hi,
I've used the trinotate pipeline as told in Trinotate.github.io with the example data, and I finally got the trinotate_annotation_report.xls. but i found the eggnog Kegg gene_ontology_BLASTX gene_ontology_BLASTP gene_ontology_Pfam items were all empty in the report.xls file. what i've done is to download the Trinotate.sqlite and make all blast results loaded in sqlite database. database used for blast (the uniprot_sprot and pfam databases) were downloaded before of my own without _Build_Trinotate_Boilerplate_SQLite_db.pl. I also found that the _Build_Trinotate_Boilerplate_SQLitedb.pl also download uniprot_sprot.dat which have GO information in it, but not used in any step in the pipline. I wonder is it because the wrong dadta i used or something wrong with the process i did that make GO annotation empty.
hi, I've used the trinotate pipeline as told in Trinotate.github.io with the example data, and I finally got the trinotate_annotation_report.xls. but i found the eggnog Kegg gene_ontology_BLASTX gene_ontology_BLASTP gene_ontology_Pfam items were all empty in the report.xls file. what i've done is to download the Trinotate.sqlite and make all blast results loaded in sqlite database. database used for blast (the uniprot_sprot and pfam databases) were downloaded before of my own without _Build_Trinotate_Boilerplate_SQLite_db.pl. I also found that the _Build_Trinotate_Boilerplate_SQLitedb.pl also download uniprot_sprot.dat which have GO information in it, but not used in any step in the pipline. I wonder is it because the wrong dadta i used or something wrong with the process i did that make GO annotation empty.
THX ruoxi Jing