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المحتوى المقدم من Real Python. يتم تحميل جميع محتويات البودكاست بما في ذلك الحلقات والرسومات وأوصاف البودكاست وتقديمها مباشرة بواسطة Real Python أو شريك منصة البودكاست الخاص بهم. إذا كنت تعتقد أن شخصًا ما يستخدم عملك المحمي بحقوق الطبع والنشر دون إذنك، فيمكنك اتباع العملية الموضحة هنا https://ar.player.fm/legal.
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Using Python in Bioinformatics and the Laboratory

50:46
 
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Manage episode 408268941 series 2637014
المحتوى المقدم من Real Python. يتم تحميل جميع محتويات البودكاست بما في ذلك الحلقات والرسومات وأوصاف البودكاست وتقديمها مباشرة بواسطة Real Python أو شريك منصة البودكاست الخاص بهم. إذا كنت تعتقد أن شخصًا ما يستخدم عملك المحمي بحقوق الطبع والنشر دون إذنك، فيمكنك اتباع العملية الموضحة هنا https://ar.player.fm/legal.

How is Python being used to automate processes in the laboratory? How can it speed up scientific work with DNA sequencing? This week on the show, Chemical Engineering PhD Student Parsa Ghadermazi is here to discuss Python in bioinformatics.

Parsa provides background on his research and the bioinformatic techniques used to discover gut microbes’ role in human health and diseases. We talk about automating lab experiments with liquid handling robots and Python.

We dig into libraries to shatter and reassemble DNA sequences. Parsa also shares current projects from the Chan Lab at Colorado State University and his GitHub repository.

Course Spotlight: Building Python Project Documentation With MkDocs

In this video course, you’ll learn how to build professional documentation for a Python package using MkDocs and mkdocstrings. These tools allow you to generate nice-looking and modern documentation from Markdown files and, more importantly, from your code’s docstrings.

Topics:

  • 00:00:00 – Introduction
  • 00:01:51 – Engineering Background and Current PhD Program
  • 00:05:52 – What is Bioinformatics?
  • 00:08:11 – Where do you use Python in the lab?
  • 00:10:35 – Using lab robotics
  • 00:15:22 – Python development environment
  • 00:16:33 – Lab robotics allow for precision
  • 00:19:03 – How are using these tools for research?
  • 00:22:14 – What are the techniques for measurements?
  • 00:26:17 – Video Course Spotlight
  • 00:27:33 – How is the data output from the machine?
  • 00:29:20 – Moving into DNA sequencing and extraction
  • 00:32:08 – Shattering to work with smaller DNA sequences
  • 00:34:34 – Python libraries for DNA re-assembly
  • 00:36:28 – Building ADToolbox
  • 00:40:24 – How do you store the data?
  • 00:41:32 – Inferring microbial interactions
  • 00:44:02 – Types of hardware used for these projects
  • 00:47:07 – What are you excited about in the world of Python?
  • 00:48:09 – What do you want to learn next?
  • 00:49:16 – How can people follow your work online?
  • 00:50:00 – Thanks and goodbye

Show Links:

Level up your Python skills with our expert-led courses:

Support the podcast & join our community of Pythonistas

  continue reading

233 حلقات

Artwork
iconمشاركة
 
Manage episode 408268941 series 2637014
المحتوى المقدم من Real Python. يتم تحميل جميع محتويات البودكاست بما في ذلك الحلقات والرسومات وأوصاف البودكاست وتقديمها مباشرة بواسطة Real Python أو شريك منصة البودكاست الخاص بهم. إذا كنت تعتقد أن شخصًا ما يستخدم عملك المحمي بحقوق الطبع والنشر دون إذنك، فيمكنك اتباع العملية الموضحة هنا https://ar.player.fm/legal.

How is Python being used to automate processes in the laboratory? How can it speed up scientific work with DNA sequencing? This week on the show, Chemical Engineering PhD Student Parsa Ghadermazi is here to discuss Python in bioinformatics.

Parsa provides background on his research and the bioinformatic techniques used to discover gut microbes’ role in human health and diseases. We talk about automating lab experiments with liquid handling robots and Python.

We dig into libraries to shatter and reassemble DNA sequences. Parsa also shares current projects from the Chan Lab at Colorado State University and his GitHub repository.

Course Spotlight: Building Python Project Documentation With MkDocs

In this video course, you’ll learn how to build professional documentation for a Python package using MkDocs and mkdocstrings. These tools allow you to generate nice-looking and modern documentation from Markdown files and, more importantly, from your code’s docstrings.

Topics:

  • 00:00:00 – Introduction
  • 00:01:51 – Engineering Background and Current PhD Program
  • 00:05:52 – What is Bioinformatics?
  • 00:08:11 – Where do you use Python in the lab?
  • 00:10:35 – Using lab robotics
  • 00:15:22 – Python development environment
  • 00:16:33 – Lab robotics allow for precision
  • 00:19:03 – How are using these tools for research?
  • 00:22:14 – What are the techniques for measurements?
  • 00:26:17 – Video Course Spotlight
  • 00:27:33 – How is the data output from the machine?
  • 00:29:20 – Moving into DNA sequencing and extraction
  • 00:32:08 – Shattering to work with smaller DNA sequences
  • 00:34:34 – Python libraries for DNA re-assembly
  • 00:36:28 – Building ADToolbox
  • 00:40:24 – How do you store the data?
  • 00:41:32 – Inferring microbial interactions
  • 00:44:02 – Types of hardware used for these projects
  • 00:47:07 – What are you excited about in the world of Python?
  • 00:48:09 – What do you want to learn next?
  • 00:49:16 – How can people follow your work online?
  • 00:50:00 – Thanks and goodbye

Show Links:

Level up your Python skills with our expert-led courses:

Support the podcast & join our community of Pythonistas

  continue reading

233 حلقات

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