OMACASE
an open-source standalone Python package to analyze optical mapping data, with de novo repeat motif detection and analysis capabilities
License
- GPL-3.0-or-later
Written in & for
- Python 3.8+
Requirements
- Python 3.8+
- Docker (only if running inside a Docker container)
- wkhtmltopdf for PDF print
- Make sure X11 server has been started for PDF printing
Installation
python3 -m pip install --user omacase
(Alternatively) Runninng inside a Docker container
docker build .docker run {image ID}ORdocker run ccneko/omacase(pending registrations)
Getting Started
Below are some simple instructions to help you start using OMACASE
Importing the package in Python
import omacase
Reading BNX / CMAP input in custom Python script
your_bnx = opmap.BNX(your_bnx_path)your_cmap = opmap.CMAP(your_cmap_path)
Publication
- Chung CYL, Chan TF. OMACASE: Optical Mapping Quality Control and Repeat Detection Software. (Manuscript in preparation)
1 maintainer
Metadata
1 maintainer
Release files for omacase 1.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| omacase-1.0.tar.gz | 292.3 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| omacase-1.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 581.5 kB
Release files / omacase-1.0.tar.gz
| Download URL | omacase-1.0.tar.gz |
|---|---|
| Size | 292.3 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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| Upload date | |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.8.10
|
Release files / omacase-1.0-py3-none-any.whl
| Download URL | omacase-1.0-py3-none-any.whl |
|---|---|
| Size | 289.2 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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BLAKE2b-256 checksum How to use checksums |
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| Upload date | |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.8.10
|
