A converter from .bam to .png for specific genomic region.
Project description
BAMsnap
BAMSNAP is high-performed command-based visualization tool for the aligned BAM file.
For more details, see BamSnap Documentation.
Installation
Prerequisites
- python 3.4+
- Pillow (Python Imaging Library)
- pysam
- pyfaidx
- pytabix
Install with pip
pip install bamsnap
Install with github
git clone https://github.com/parklab/bamsnap
cd bamsnap
python setup.py install
Usage
Simple usage
$ bamsnap -bam test.bam -pos 1:7364529 -out test.png
For more details, see BamSnap Documentation.
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
bamsnap-0.2.9.tar.gz
(20.7 MB
view details)
Built Distribution
bamsnap-0.2.9-py3-none-any.whl
(20.7 MB
view details)
File details
Details for the file bamsnap-0.2.9.tar.gz.
File metadata
- Download URL: bamsnap-0.2.9.tar.gz
- Upload date:
- Size: 20.7 MB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/3.2.0 pkginfo/1.5.0.1 requests/2.24.0 setuptools/46.4.0 requests-toolbelt/0.9.1 tqdm/4.48.2 CPython/3.7.7
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 3f4f8a034950130448efac342d8e425ff41e0d9744be380eba5fcf7a6b24f0c9 |
|
| MD5 | 30e5f44a9de90b84657c941d54b42c91 |
|
| BLAKE2b-256 | cab2a37a78e3358b3395095cf7f3f09c94b75590ee4d90cba6b68a87264f61af |
Provenance
File details
Details for the file bamsnap-0.2.9-py3-none-any.whl.
File metadata
- Download URL: bamsnap-0.2.9-py3-none-any.whl
- Upload date:
- Size: 20.7 MB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/3.2.0 pkginfo/1.5.0.1 requests/2.24.0 setuptools/46.4.0 requests-toolbelt/0.9.1 tqdm/4.48.2 CPython/3.7.7
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | b6a625afdec6ab2b39eede66c4cc35cf79bd64493c037402da739b310f3a9ce3 |
|
| MD5 | a56c310bc4f0a788bc22663f21073614 |
|
| BLAKE2b-256 | f5ffa296bcbb352c46d6c96628ded4bb82deb419fdeeac8f32d9ce9db6b14211 |
