molbery 1.0.6

功能

最新版本包括：

Support for Fasta & multi-Fasta format

Manual specification of GC content, Tm range & Salt Conc.

reStructuredText Output

BLAST connect with parallel execution

兼容性

Molbery is a cross platform tool which runs on Windows, Linux and OS X with the latest & major releases of python 2 & 3.

许可证

Molbery is an open source tool available under the OSI approved MIT license.

Copyright (c) 2016 Bhagya C T

Copyright (c) 2016 Manu S

Please read the license content here.

安装

All the Python packages required for Molbery will be installed with pip.

Run cmd with Administrator permissions in Windows.

> pip install molbery

Run command with sudo permissions in Linux and OS X.

$ sudo pip install molbery

You can manually download the Molbery repository or simply clone it.

$ git clone https://github.com/bhagya-ct/molbery

使用量

After succesful installation refer command help for all available options.

$ molbery --help

For a single FASTA input run

$ molbery <path_to_fasta> --blast --out <output> -g <GC_min> -c <GC_max> -t <Tm_min> -m <Tm_max> -s <salt_conc_in_molar_units>

For a multi-FASTA input run (Output cannot be specified for multiple seq. Default is sequence ID present in multi-FASTA)

$ molbery <path_to_fasta> --blast --multi -g <GC_min> -c <GC_max> -t <Tm_min> -m <Tm_max> -s <salt_conc_in_molar_units>

样本输出

Sequence ID - <gid_of_sequence>

注意：blast输出被写入<；output>；\u blast_results/文件夹，每个探测都有单独的文本文件。

作者和贡献者

The tool is designed and developed by Bhagya C T, Scientist-Biotechnology, Omix Research & Diagnostics Labs and Manu S, Institute of Bioinformatics & Applied Biotechnology. The authors are grateful to Dr. Sudeshna Adak, CEO & Director, Omix Research & Diagnostics Labs for providing important technical supervision and discussions.

源代码

The source codes of Molbery are available

via git: https://github.com/bhagya-ct/molbery

via Pypi: https://pypi.python.org/pypi/molbery

学分

感谢pythonistas提供了一些很棒的插件模块和库，可以节省大量的咖啡因和代码！

• joblib
• argparse
• tabulate
• regex
• biopython

常见问题

Q1) pip command not found?

Ans. You probably don’t have the latest release of Python. Update Python or install pip.

q2）安装成功，但找不到molbery命令？

Ans. You would not have given Admin or sudo permissions while installing. Run $ pip uninstall molbery and reinstall with Admin or sudo permissions.

虫子

如果您在molbery（pypi）中发现一个bug，请尝试使用最新的python 2.7和3.5来复制它。

如果问题仍然存在，请在存储库page中的github问题跟踪系统中提交一个错误。 有关问题、疑难解答和请求，请随时通过bhagyathimmappa@gmail.com或smanu@ibab.ac.in与我们联系

参考文献