Toolchest runs computational biology software in the cloud with just a few lines of code. You can call Toolchest from anywhere Python or R runs, using input files located on your computer or S3.
Running one of our favorite computational biology tools – Kraken 2 – looks like:
import toolchest_client as toolchest toolchest.set_key("YOUR_KEY") toolchest.kraken2( tool_args="--minimum-base-quality 25", inputs="s3://toolchest-demo-data/SRR16201572_R1.fastq", output_path="./", )
library(toolchest) toolchest$set_key("YOUR_KEY") toolchest$kraken2( tool_args = "--minimum-base-quality 25", inputs = "s3://toolchest-demo-data/SRR16201572_R1.fastq", output_path = "./" )
Toolchest currently supports the following tools:
- Bowtie 2
- Clustal Omega
- Kraken 2
- ...and more! Shoot us an email if you want to use software that isn't listed here.
If you're looking for supported databases or supported tool arguments, check out the tool-specific page (e.g. Kraken 2) – these are different for every tool.
Toolchest offers a Python package and an R package.
Our client packages are open-source! Check out our GitHub repos here:
If anything comes up, we'd love to talk! Shoot us an email at [email protected].
Updated 6 days ago