Last change: 05.Nov.2024
# This directory contains files used for the analyses.

Existing files:

# Bin, MAG sequences of giant viruses in Uranouchi Inlet
We then applied an in-house pipeline to 42 coastal metagenomes extracted from water samples within the 0.22–0.8 μm size fraction collected in the Uranouchi Inlet, Kochi Prefecture, Japan. Both the initial bin set and the final nonredundant MAG set of giant viruses  are available in this directory, along with the gene profiles.

Raw_Bins
MAGs_Genomes
MAGs_Genes

# inStrain profiles
The back-mapping files were used as input for InStrain v1.0.0 to generate single nucleotide variant (SNV) profiles at both the genome and gene levels. SNVs were identified exclusively at sites with a minimum coverage depth of 5-fold. Both profiles are organized based on mapped reads (i.e., by samples).

inStrain_Profiles_gene
inStrain_Profiles_SNV

Reference:
Fang Yue*, Lingjie Meng*, Jun Xia, Yasushiro Gotoh, Tetsuya Hayashi, Keizo Nagasaki, Hisashi Endo, Yusuke Okazaki, and Hiroyuki Ogata. “Genome-resolved year-round dynamics reveal a broad range of giant virus microdiversity.” bioRxiv(2024). 

If any question please contact: lingjie@kuicr.kyoto-u.ac.jp