CS101E Python for Biologists, Level 1

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==Objective==
==Objective==
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This course aims at teaching biologists how to use Python as a programming language to automate routine data management tasks in biological research and solve difficult data-related computational problems. Data could be DNA or amino acid sequence, microarray data, images, mass spectrometry data, LIMS data, or any other kind of biological information.
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This teaches biologists how to use Python as a programming language to automate routine data management tasks in biological research and solve difficult data-related computational problems. Data could be DNA or amino acid sequence, microarray data, images, mass spectrometry data, LIMS data, or any other kind of biological information.
==Instructors==
==Instructors==
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==Course outline==
==Course outline==
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The course is divided into 4 sessions, roughly 1-1.5 hours each. The 5th session is reserved for project discussion and any other issues the students may want to discuss. There will be quizzes and homework assignments after every lecture.
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The course is divided into 4 sessions. The 5th session is reserved for project discussion and any other issues the students may want to discuss. There will be quizzes and homework assignments after every lecture.
* Day 1: Installation issues and simple exercises that illustrate how to create and execute simple Python programs using variables and the print statement. The Python interpreter and editor will be introduced.
* Day 1: Installation issues and simple exercises that illustrate how to create and execute simple Python programs using variables and the print statement. The Python interpreter and editor will be introduced.
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* Day 2: Fundamentals of programming with Python, such as operators (mathematical, conditional, logical), file input/output, loops (if-then-else, for, while), etc.
* Day 2: Fundamentals of programming with Python, such as operators (mathematical, conditional, logical), file input/output, loops (if-then-else, for, while), etc.
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* Day 3: Functions, hashes and object oriented programming.
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* Day 3: Functions, hashes and object oriented programming
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* Day 4: Cover the installation of Python packages such as iPython, NumPy (Numeric Python), and Biopython. Some basic tasks in these packages will be covered. Project discussion.
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* Day 4: Installation of Python packages such as iPython, NumPy (Numeric Python), and Biopython. Some basic tasks in these packages will be covered. Project discussion.
==Course schedule==
==Course schedule==
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If you are interested in an upcoming course, register using instructions below. (Access to completed courses is available to enrolled students only, because of privacy and confidentiality issues.)
If you are interested in an upcoming course, register using instructions below. (Access to completed courses is available to enrolled students only, because of privacy and confidentiality issues.)
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* [http://edu.bioinformatics.org/CTT Course CTT (online), June 7-11, 2008, 15:30-16:30 GMT]
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* [http://edu.bioinformatics.org/CTT Course CTT (online), June 7-11, 2008, 15:30-16:30 GMT daily]
* [http://edu.bioinformatics.org/AGA Course AGA (online), December 10-14, 2007, 16:30-18:00 GMT]
* [http://edu.bioinformatics.org/AGA Course AGA (online), December 10-14, 2007, 16:30-18:00 GMT]
* [http://edu.bioinformatics.org/CS101E Site license login]
* [http://edu.bioinformatics.org/CS101E Site license login]
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==Registration==
==Registration==
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Registration is comprised of two steps. First, if you haven't already done so, [https://edu.bioinformatics.org/login/signup.php create an online account] to access the educational section of our website. Second, register for this course by making a payment using either the online registration form (click on the scheduled course above; ''use this form only for credit card payments via secured PayPal''), or by sending in the [http://edu.bioinformatics.org/download/registration_form.pdf mail-in registration form] (~150 kB PDF, ''use this form if paying by US checks, credit card or corporate purchase order''). Please check the tuition rates and discounts below.
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Registration takes two steps. First, if you haven't already done so, [https://edu.bioinformatics.org/login/signup.php create an online account] to access the educational section of our website. Second, register for this course by making a payment using either the online registration form (click on the scheduled course above; ''use this form only for credit card payments via secured PayPal''), or by sending in the [http://edu.bioinformatics.org/download/registration_form.pdf mail-in registration form] (~150 kB PDF, ''use this form if paying by US checks, credit card or corporate purchase order''). Please check the tuition rates and discounts below.
Registration deadline: When full
Registration deadline: When full

Revision as of 00:00, 5 June 2008

Contents

Objective

This teaches biologists how to use Python as a programming language to automate routine data management tasks in biological research and solve difficult data-related computational problems. Data could be DNA or amino acid sequence, microarray data, images, mass spectrometry data, LIMS data, or any other kind of biological information.

Instructors

Course outline

The course is divided into 4 sessions. The 5th session is reserved for project discussion and any other issues the students may want to discuss. There will be quizzes and homework assignments after every lecture.

Course schedule

If you are interested in an upcoming course, register using instructions below. (Access to completed courses is available to enrolled students only, because of privacy and confidentiality issues.)

Registration

Registration takes two steps. First, if you haven't already done so, create an online account to access the educational section of our website. Second, register for this course by making a payment using either the online registration form (click on the scheduled course above; use this form only for credit card payments via secured PayPal), or by sending in the mail-in registration form (~150 kB PDF, use this form if paying by US checks, credit card or corporate purchase order). Please check the tuition rates and discounts below.

Registration deadline: When full

Tuition & discounts

The fee for this course is $695 USD (Commercial, Government)

Discounted rates are available, as follows:

Logistics

Online courses are offered via an online meeting system. Access information will be provided prior to the start of the course. Each lecture will last 45 to 90 minutes, depending on the topics covered. For those who cannot attend the lectures at those times, the lectures will be recorded and placed on the course website as Flash videos (resolution reduced by 30%) each day, within one day. Students will also be able to communicate with the instructor and other students via the course forums. Lecture attendance is therefore not required.

Since this will be an interactive, hands-on workshop, all attendees will need a computer with a broadband Internet connection (1 Mbps or faster is strongly recommended for those watching the live lecture), a sound card with speakers, a modern Web browser, and the Adobe Flash plugin. A microphone and webcam is not required for this course. The necessary software, lecture notes and exercises will be provided.

Certification

This course is certified by the Bioinformatics Organization, Inc., the largest international affiliation in the field, and it will count as 5 "Continuing Scientific Education" (CSE) credits (one credit per contact hour) within the Organization. Students completing the course will receive a certificate attesting to that.

Additional information

If you have any questions, please send a message to J.W. Bizzaro (login required) or call +1 978 562 4800.

See also

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