Installation
The software can be installed using pip
pip install bio-corgiTo install the latest version from the repository, you can use this command:
pip install git+https://github.com/rbturnbull/corgi.gitUsage
To make predictions, run the corgi command line tool:
corgi --input <input seq file> --output-csv <output csv file>The input can be a FASTA file, a GenBank file, or a FASTQ file. This can be GZipped or uncompressed. It can also be a URL.
This will output all the predictions in a CSV file.
For more information about the other options, see the help with:
corgi --helpFor help on training a model with corgi, run:
corgi-tools --helpCredits
Vinícius Salazar
Edoardo Tescari
Heroen Verbruggen
With contributions from:
Yuhao Tong
Kamalpreet Singh
Rafsan Al Mamun
Diego Aranda Villarreal
Citation details to come.
Created using torchapp (https://github.com/rbturnbull/torchapp)
1 maintainer
Metadata
1 maintainer
Release files for bio-corgi 0.5.6
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| bio_corgi-0.5.6.tar.gz | 32.3 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| bio_corgi-0.5.6-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 68.8 kB
Release files / bio_corgi-0.5.6.tar.gz
| Download URL | bio_corgi-0.5.6.tar.gz |
|---|---|
| Size | 32.3 kB |
| Tags | Source |
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Release files / bio_corgi-0.5.6-py3-none-any.whl
| Download URL | bio_corgi-0.5.6-py3-none-any.whl |
|---|---|
| Size | 36.4 kB |
| Tags | Python 3 |
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