Resistome and MDRO analyses of NDFB FMT cohort

Scripts used to analyse metagenomic sequencing data from a project to study the resistome and multidrug-resistant organisms of multiple recurrent Clostridioides difficile infected (rCDI) patients treated with faecal microbiota transplantation (FMT) and healthy stool donors from the Netherlands Donor Feces Bank (NDFB). Also includes analyses on whole-genome sequenced multidrug-resistant bacterial isolates.

Original Git repository: https://git.lumc.nl/snooij/rcdi-resistome-and-mdro-analyses; the version of this (Zotero) repository matches the version on GitLab

The preprint of the manuscript is available at https://www.qeios.com/read/1CZVNS; it is the intention to also keep the version synchronised with the preprint on Qeios.

The peer reviewed paper has been published in Genome Medicine: https://rdcu.be/dAnF6 (doi: 10.1186/s13073-024-01306-7).