Closed alimayy closed 2 years ago
@alimayy As an example, Blasting AXC-1 on the CARD database produces the results shown. The bit-score chosen will be 500, as it will capture genes similar to AXC-1.
Can you please tell me how exactly I can use one of the detection models?
@alimayy these detection models are used by CARD's Resistance Gene Identifier software: https://github.com/arpcard/rgi (contains full documentation). There is an online portal at https://card.mcmaster.ca/analyze/rgi. Also described in CARD's latest publication: https://pubmed.ncbi.nlm.nih.gov/36263822/
Hi there,
Thanks for developing RGI.
Regarding the perfect, strict, and loose hits, Jia et al. 2017 mentions:
Could you provide a more technical definition of these terms? For instance for 'perfect', I understand from https://github.com/arpcard/rgi/issues/101 that the self-mapping bit-scores determine the 'perfect' hits. Could you provide more info on how 'strict' and 'loose' thresholds are chosen?
Thanks in advance, Ali