diff --git a/doc/databases.md b/doc/databases.md index 781d2a6f6..3d607bdb9 100644 --- a/doc/databases.md +++ b/doc/databases.md @@ -30,6 +30,25 @@ The databases do not need to be unpacked or prepared in any way after download. You can verify that they've been successfully downloaded (and view database properties such as `ksize` and `scaled`) with `sourmash sig summarize `. +## Sketches for human and animal genomes + +These sketches are of the latest releases of a number of animal +genomes. Among other uses, they can be used to detect host +contamination in microbial metagenomes. + +Each file includes sketches at k=21, k=31, and k=51, at a scaled of +1000, and is about 110 MB. + +* Human (hg38) - [hg38.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/hg38.sig.zip) +* Cow (bosTau9) - [bosTau9.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/bosTau9.sig.zip) +* Dog (canFam6) - [canFam6.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/canFam6.sig.zip) +* Horse (equCab3) - [equCab3.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/equCab3.sig.zip) +* Cat (felCat9) - [felCat9.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/felCat9.sig.zip) +* Chicken (galGAl6) - [galGal6.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/galGal6.sig.zip) +* Mouse (mm39) - [mm39.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/mm39.sig.zip) +* Goat (oviAri4) - [oviAri4.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/oviAri4.sig.zip) +* Pig (susCr11) - [susScr11.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/susScr11.sig.zip) + ## GTDB R08-RS214 - DNA databases [GTDB R08-RS214](https://forum.gtdb.ecogenomic.org/t/announcing-gtdb-r08-rs214/456) consists of 402,709 genomes organized into 85,205 species clusters.