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# Collection: GTDB RS220

Bacterial and Archaeal genomes from GTDB RS220.

Links:

* [Announcement](https://forum.gtdb.ecogenomic.org/t/announcing-gtdb-r09-rs220/595)

## Database files

| K-mer size | GTDB reps | GTDB entire |
| -------- | -------- | -------- |
| 21 | [download (2.8 GB)](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k21.dna.zip) | [download (17.0 GB)](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k21.dna.zip)  |
| 31 | [download (2.8 GB)](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k31.dna.zip) | [download (17.0 GB)](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k31.dna.zip)  |
| 51 | [download (2.8 GB)](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k51.dna.zip) | [download (17.0 GB)](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k51.dna.zip)  |


## Taxonomy files

* [GTDB taxonomy for RS220.](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220.lineages.csv)


## Advanced

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### Complete list of database files

Files:

* zip: [gtdb-rs220-k21.dna.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k21.dna.zip) - all GTDB genomes - DNA, k=21, scaled=1000 (17.0 GB)
* zip: [gtdb-rs220-k31.dna.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k31.dna.zip) - all GTDB genomes - DNA, k=31, scaled=1000 (17.0 GB)
* zip: [gtdb-rs220-k51.dna.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k51.dna.zip) - all GTDB genomes - DNA, k=51, scaled=1000 (17.0 GB)


* zip: [gtdb-reps-rs220-k21.dna.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k21.dna.zip) - GTDB species representative genomes - DNA, k=21, scaled=1000 (2.8 GB)
* zip: [gtdb-reps-rs220-k31.dna.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k31.dna.zip) - GTDB species representative genomes - DNA, k=31, scaled=1000 (2.8 GB)
* zip: [gtdb-reps-rs220-k51.dna.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k51.dna.zip) - GTDB species representative genomes - DNA, k=51, scaled=1000 (2.8 GB)


### Download via curl using the command line

```shell
# download gtdb-rs220-k21.dna.zip
curl -O --no-clobber https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k21.dna.zip

# download gtdb-rs220-k31.dna.zip
curl -O --no-clobber https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k31.dna.zip

# download gtdb-rs220-k51.dna.zip
curl -O --no-clobber https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k51.dna.zip

# download gtdb-reps-rs220-k21.dna.zip
curl -O --no-clobber https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k21.dna.zip

# download gtdb-reps-rs220-k31.dna.zip
curl -O --no-clobber https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k31.dna.zip

# download gtdb-reps-rs220-k51.dna.zip
curl -O --no-clobber https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k51.dna.zip

# download taxonomy file
curl -O --no-clobber https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220.lineages.csv
```


### A list of all the URLs

```
https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k21.dna.zip
https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k31.dna.zip
https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220-k51.dna.zip
https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k21.dna.zip
https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k31.dna.zip
https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-reps-rs220-k51.dna.zip
https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db.new/gtdb-rs220/gtdb-rs220.lineages.csv
```