Error in fred (read_trinotate) problem. trinotateR

[berumeng]

Dear all:
I used Trinotate to annotate a transcriptome and I am trying to use trinotateR to manipulate the final product of Trinotate.
I have a Trinotate.xls file report (I used the .xls file, the .docx file is just to show the columns of the .xls file)
Trinity_example.docx

However when i used the read_trinotate function:
x <- read_trinotate("Trinotate.xls")

I get the following error:

Error in fread(file, sep = "\t", na.strings = ".", ...) :
embedded nul in string: '\xd0\xcf\021\u0871\032\xe1\0\0\0\0\0\0\0\0\0\0\0\0\0\0\0\0>\0\003\0\xfe\xff'

Could you please help me solve this?

Thanks in advance!!

[cstubben]

read_trinotate runs fread(file, sep="\t", na.strings=".") and a few extra steps. It requires a tab-delimited file as input and when I wrote this five years ago, the Trinotate.xls output was a text file with a .xls ending. That may have changed, so please check the file type - the null string seems like something Excel would add.

head -1 Trinotate_report.xls
#gene_id	transcript_id	sprot_Top_BLASTX_hit ...

[berumeng]

Thanks, this help me a lot!