Comments (2)
Oh of course! I can't believe I didn't think to just import the function directly. Thanks!
from gemelli.
Hi @harper357,
Yes! There is a QIIME2 CLI for just that table if you would like it:
qiime gemelli phylogenetic-rclr-transformation --help
or standalone CLI
gemelli phylogenetic-rclr --help
There is also a Python API function.
from gemelli.preprocessing import phylogenetic_rclr_transformation
This requires the table and phylogeny input and will return the table and a tip to feature the matched phylogeny.
from gemelli.
Related Issues (20)
- Need taxonomy level delim
- Gemelli phylo-RPCA-with-taxonomy overwriting ASV taxonomy in an unexpected way HOT 1
- Qiime2 Version - not able to do multiple states HOT 3
- Memory usage problems HOT 4
- low-rank determination not working with high-rank data
- possible numpy-related issue HOT 6
- Is it possible to use the data without a biom as input HOT 2
- Baseline correction in tensor factorisation. HOT 1
- Qiime2 Phylo-RPCA ValueError HOT 1
- divide by zero encountered in log
- Error "ImportError: cannot import name 'ConstantInputWarning' from 'scipy.stats'" HOT 1
- Error trying to do qc-rarefy HOT 2
- Installing gemelli using the reticulate package in R HOT 3
- `--p-no-svd-centralized` not working? HOT 1
- qc-rarefy errored on the first sample that is in the unrarefied and not in the rarefied dataset HOT 4
- QIIME 2 2023.7 Deprecation Issue HOT 2
- ImportError: cannot import name 'rclr' HOT 5
- Enable Experimental Vega export in Emperor plots HOT 3
- pip install missing qc_assets folder
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from gemelli.