Introduction
Available modules
Extract
Extracts profile DB from genome using Prodigal
ezaai extract -i <IN> -o <OUT>
| Argument | Description |
|---|---|
| -i | Input bacterial genome sequence |
| -o | Output profile database |
Convert
Converts CDS FASTA file into profile DB
ezaai convert -i <IN> -s <SEQ> -o <OUT>
| Argument | Description |
|---|---|
| -i | Input CDS profile (FASTA format) |
| -s | Sequence type of input file (nucl/prot) |
| -o | Output profile DB |
Calculate
Calculate AAI value from profile databases using MMseqs2
ezaai calculate -i <IN_1> -j <IN_2> -o <OUT>
| Argument | Description |
|---|---|
| -i | First input profile DB / directory with profile DBs |
| -j | Second input profile DB / directory with profile DBs |
| -o | Output result file |
Cluster
Hierarchical clustering of taxa with AAI values
ezaai cluster -i <IN> -o <OUT>
| Argument | Description |
|---|---|
| -i | Input EzAAI result file containing all-by-all pairwise AAI values |
| -o | Output result file |
EzAAI TEAM
Dongwook Kim1
Sein Park1
Jon Jongsik Chun1,2,3
1 Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul 00826, Republic of Korea
2 Institute of Molecular Biology and Genetics, Seoul National University, Seoul 00826, Republic of Korea
3 School of Biological Sciences, Seoul National University, Seoul 00826, Republic of Korea