Seek 'n Blastn

Seek n' Blastn' limitations are documented in the following manuscript: 

Labbé, C., Cabanac, G., West, R.A. et al. Flagging incorrect nucleotide sequence reagents in biomedical papers: To what extent does the leading publication format impede automatic error detection?. Scientometrics 124, 1139–1156 (2020). https://doi.org/10.1007/s11192-020-03463-z

The contribution of this paper is twofold. First, we designed the erroneous reagent checking (ERC) benchmark to assess the accuracy of fact-checkers screening biomedical publications for dubious mentions of nucleotide sequence reagents. It comes with a test collection comprised of 1679 nucleotide sequence reagents that were curated by biomedical experts. Second, we benchmarked our own screening software called Seek&Blastn with three input formats to assess the extent of performance loss when operating on various publication formats. Our findings stress the superiority of markup formats (a 79% detection rate on XML and HTML) over the prominent PDF format (a 69% detection rate at most) regarding an error flagging task. 

Briefly...