Data and code from 'Facultative root-colonizing fungi dominate endophytic assemblages in roots of non-mycorrhizal Microthlaspi species'

Data and code for analyses in Glynou et al., Facultative root-colonizing fungi dominate endophytic assemblages in roots of non-mycorrhizal Microthlaspi species.<br>Contains:- README.pdf: Description of contents.<br>- MiSeq_process.sh : Bash script with the bioinformatic pipeline used for process and annotation of Illumina MiSeq reads (R1 reads only). Demultiplexed sequence data is deposited in the NCBI Sequence Read Archive under accession SRP106137.<br>- Phylogenetic_analyses : Bash script and data for phylogenetic analyses of all OTUs obtained after the MiSeq reads processing.<br><br>- All_OTU_phylogenies.zip : Maximum-likelihood phylogenetic trees (Newick format) and associated sequence annotations used for OTU classifications.<br>- R_code.zip : R commands and data sets for statistical analyses.