diff --git a/README.md b/README.md index c44cc00..4c18fa1 100644 --- a/README.md +++ b/README.md @@ -15,3 +15,13 @@ sequence_metadata <- metadata$mms_metagenomeSequencing %>% distinct() %>% rename(sampleID = dnaSampleID) write.csv(sequence_metadata, "./metadata_metagenome.csv") ``` + +Included in this repository, in the `ARO` directory, is an ontology file from CARD: + +Alcock et al. "CARD 2020: antibiotic resistome surveillance with the Comprehensive +Antibiotic Resistance Database" Nucleic Acids Research, 48: D517-D525. +https://www.ncbi.nlm.nih.gov/pubmed/31665441 + +`NCycDB_pathways.csv` contains gene pathway data from NCycDB: + +Tu, Qichao, et al. "NCycDB: a curated integrative database for fast and accurate metagenomic profiling of nitrogen cycling genes." Bioinformatics 35.6 (2019): 1040-1048.