R Markdown: Because RNA-seq Code Shouldn't Be Wild-Type

21min | 06/26/2025

Description

Alex and Lorena discuss a large bulk RNA-seq project that yielded lasting changes to their group’s everyday bioinformatics practices via the creation of parameterized R Markdown code templates. In the “Quick Sip” segment, they discuss reticulate for managing python environments in an R context, and in “Brewing Up Answers”, they reflect on the differences between industry and academia bioinformatics.

Thanks to our 300+ listeners of past episodes!

Send us your comments, questions, and suggestions using this form: https://forms.gle/ncwo6HZeN4uA9gPg7

Also, we are looking for sponsors! Please get in touch if you or your business would like to help support this podcast.

Follow us on LinkedIn: https://www.linkedin.com/in/lpantano/ and https://www.linkedin.com/in/alexandra-bartlett-926b32109/

If you enjoyed the episode, please subscribe and leave us a review. Subscribe here: https://podcast.ausha.co/a-coffee-with-compbio?s=1

Hosted on Ausha. See ausha.co/privacy-policy for more information.

About A Coffee with CompBio

Step into the world where algorithms meet biology! Hosts Lorena Pantano and Alex Bartlett, two dynamic women in science, unravel the complexities and curiosities of computational biology. Each episode, they break down complicated analyses, demystify big data approaches, and share real-world stories from their own bioinformatics research adventures. Whether you’re a seasoned bioinformatician or just bio-curious, Alex and Lorena's engaging banter, expert interviews, and practical tips will guide you through the fascinating process of turning raw biological data into meaningful scientific discoveries. Join them as they make computation in the life sciences accessible—and even a little bit fun!

Hosted on Ausha. See ausha.co/privacy-policy for more information.

About A Coffee with CompBio

Step into the world where algorithms meet biology! Hosts Lorena Pantano and Alex Bartlett, two dynamic women in science, unravel the complexities and curiosities of computational biology. Each episode, they break down complicated analyses, demystify big data approaches, and share real-world stories from their own bioinformatics research adventures. Whether you’re a seasoned bioinformatician or just bio-curious, Alex and Lorena's engaging banter, expert interviews, and practical tips will guide you through the fascinating process of turning raw biological data into meaningful scientific discoveries. Join them as they make computation in the life sciences accessible—and even a little bit fun!

Hosted on Ausha. See ausha.co/privacy-policy for more information.

Description

Alex and Lorena discuss a large bulk RNA-seq project that yielded lasting changes to their group’s everyday bioinformatics practices via the creation of parameterized R Markdown code templates. In the “Quick Sip” segment, they discuss reticulate for managing python environments in an R context, and in “Brewing Up Answers”, they reflect on the differences between industry and academia bioinformatics.

Thanks to our 300+ listeners of past episodes!

Send us your comments, questions, and suggestions using this form: https://forms.gle/ncwo6HZeN4uA9gPg7

Also, we are looking for sponsors! Please get in touch if you or your business would like to help support this podcast.

Follow us on LinkedIn: https://www.linkedin.com/in/lpantano/ and https://www.linkedin.com/in/alexandra-bartlett-926b32109/

If you enjoyed the episode, please subscribe and leave us a review. Subscribe here: https://podcast.ausha.co/a-coffee-with-compbio?s=1

Hosted on Ausha. See ausha.co/privacy-policy for more information.

About A Coffee with CompBio

Step into the world where algorithms meet biology! Hosts Lorena Pantano and Alex Bartlett, two dynamic women in science, unravel the complexities and curiosities of computational biology. Each episode, they break down complicated analyses, demystify big data approaches, and share real-world stories from their own bioinformatics research adventures. Whether you’re a seasoned bioinformatician or just bio-curious, Alex and Lorena's engaging banter, expert interviews, and practical tips will guide you through the fascinating process of turning raw biological data into meaningful scientific discoveries. Join them as they make computation in the life sciences accessible—and even a little bit fun!

Hosted on Ausha. See ausha.co/privacy-policy for more information.

About A Coffee with CompBio

Step into the world where algorithms meet biology! Hosts Lorena Pantano and Alex Bartlett, two dynamic women in science, unravel the complexities and curiosities of computational biology. Each episode, they break down complicated analyses, demystify big data approaches, and share real-world stories from their own bioinformatics research adventures. Whether you’re a seasoned bioinformatician or just bio-curious, Alex and Lorena's engaging banter, expert interviews, and practical tips will guide you through the fascinating process of turning raw biological data into meaningful scientific discoveries. Join them as they make computation in the life sciences accessible—and even a little bit fun!

Hosted on Ausha. See ausha.co/privacy-policy for more information.

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