pombredanne / django-blastplus

simple django app for blast search

django-blastplus

A simple Django app to conduct web-based homology search with blast+.

Requirements

1. Blast+
2. Python 2.7
3. Django 1.7-1.8

pip install django

4. Biopython

pip install biopython

Download

Get the latest version of django-blastplus from https://pypi.python.org/pypi/django-blastplus/

Install

Install with pip

pip install django-blastplus

To get the git version do

$ git clone https://github.com/michal-stuglik/django-blastplus.git

Quick start

1. Add "blastplus" to your INSTALLED_APPS setting like this:

   INSTALLED_APPS = (
   
       'blastplus',
   )

2. Include the polls URLconf in your project urls.py like this:

   url(r'^blast/', include('blastplus.urls')),

3. You can modify some defaults in blastplus.settings

• e.g. modify path to nucleotide database (now as a tuple of dbs):

  BLAST_DB_NUCL_CHOICE = ((os.path.join(BASE_DIR, 'blastplus/sampledata/sample_db1/sample_db'), "Sample database 1", ),
                      (os.path.join(BASE_DIR, 'blastplus/sampledata/sample_db2/sample_db2'), "Sample database 2", ),)

• e.g. modify path to protein databases:

  BLAST_DB_PROT_CHOICE = ((os.path.join(BASE_DIR, 'blastplus/sampledata/sample_db3_prot/sample_db3_prot'), "Sample database 3 - proteins", ),
                      (os.path.join(BASE_DIR, 'blastplus/sampledata/sample_db4_prot/sample_db4_prot'), "Sample database 4 - proteins", ),)

4. Visit search pages:

• Blastn http://127.0.0.1:8000/blast/blastn
• TBlastn http://127.0.0.1:8000/blast/tblastn
• Blastp http://127.0.0.1:8000/blast/blastp
• Blastx http://127.0.0.1:8000/blast/blastx

Example

See our NewtBase portal with django-blastplus app inside

http://newtbase.eko.uj.edu.pl/blast/blastn/