hailingfang / biobrary

A python library for bioinformatics

Biobrary

Introduction

Biobrary is a python library, which contain data and methods for biological computation.

Requirement

• ete3

Install

• using pip

pip install biobrary --user

• manally install

git clone https://github.com/benjaminfang/biobrary.git

cd biobrary

mv biobrary $PYTHONPATH

where PYTHONPATH is python library searching path.

Usage

import biobrary  
dir(biobrary)  

Data and Method

• bioparse

  • FASTA

    class for fasta file.

  • GTF

    class for gtf file.

• tree

  • CircleNode

    class for phylogenic tree traverse and operations. And divide tree to circle node according to phylogenic distance.