An experimental python wrapper for gatb-core
Project description
MacOSX |
Linux |
|---|---|
About pyGATB
pyGATB is a Python3 wrapper for the GATB-Core library.
The current release of pyGATB gives access to the following GATB-Core components:
Bank: the class that enables to load Fasta and Fastaq files
Sequence: the class that holds a sequence (ID, letters, quality)
Graph: the class that holds the De Bruijn graph
Node: the class that makes graph’s nodes
Using that API you can start prototyping algorithms:
read a sequence file (Bank): FastA, FastQ (plain text or gzipped)
or read a set of files (still using the same Bank!)
convert that Bank to a De Bruijn graph (Graph)
navigate through the Graph (Node)
all of that directly using the Python Programming Language.
Documentation
Jump to the wiki to review how to install, use and make pyGATB Python3 compliant codes.
License
pyGATB and GATB-Core are free softwares; you can redistribute it and/or modify it under the Affero GPL v3 license.
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 Distributions
Built Distributions
File details
Details for the file pyGATB-0.1.2-cp36-cp36m-manylinux1_x86_64.whl.
File metadata
- Download URL: pyGATB-0.1.2-cp36-cp36m-manylinux1_x86_64.whl
- Upload date:
- Size: 3.9 MB
- Tags: CPython 3.6m
- Uploaded using Trusted Publishing? No
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 073ad79c980f6a4f307484c5eed1a8a0189b11e8a250d7700f76896273ddc64c |
|
| MD5 | 3093f7d115da91d9b59c142e05e91f88 |
|
| BLAKE2b-256 | c863bd17897617fd8e6c7dd35a8ab37d1ec5841da1f5c883777ada466d8c4451 |
File details
Details for the file pyGATB-0.1.2-cp35-cp35m-manylinux1_x86_64.whl.
File metadata
- Download URL: pyGATB-0.1.2-cp35-cp35m-manylinux1_x86_64.whl
- Upload date:
- Size: 3.9 MB
- Tags: CPython 3.5m
- Uploaded using Trusted Publishing? No
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | c3c9e0d4f05b0144063351c4f9ff03a0a7f6af9cca0c0fe22b4469d86e697d66 |
|
| MD5 | 4b3add13febe1785b9574bcfe3f9c8f0 |
|
| BLAKE2b-256 | 27127ec8e3f2529e2d4ee9386be44fa998f7cd05c42f9f2838acebbb4bc94291 |
File details
Details for the file pyGATB-0.1.2-cp34-cp34m-manylinux1_x86_64.whl.
File metadata
- Download URL: pyGATB-0.1.2-cp34-cp34m-manylinux1_x86_64.whl
- Upload date:
- Size: 3.9 MB
- Tags: CPython 3.4m
- Uploaded using Trusted Publishing? No
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 6ba09c873e305d697ad70e83c5bbc505c83100f846a2bd813e861bdf065549a2 |
|
| MD5 | ccf45da10da9e69e9fa57632c22430e0 |
|
| BLAKE2b-256 | df55bd1f234959710a5c9f1586b72b3738684b38de2b71ef32247b6e9b5b1a5e |
File details
Details for the file pyGATB-0.1.2-cp33-cp33m-manylinux1_x86_64.whl.
File metadata
- Download URL: pyGATB-0.1.2-cp33-cp33m-manylinux1_x86_64.whl
- Upload date:
- Size: 3.9 MB
- Tags: CPython 3.3m
- Uploaded using Trusted Publishing? No
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 2b336d0c8e6dc3ccf4692c710bf1685213c00aeda9a9471c2e545508738f172c |
|
| MD5 | 461547d733858c4b3ade24eb61b24cbc |
|
| BLAKE2b-256 | c93de03d62592507f64c7d9bfbfc06690c2d14ea616517c17d42fe1864e9d206 |
