A Coffee with CompBio – Détails, épisodes et analyse

Détails du podcast

Informations techniques et générales issues du flux RSS du podcast.

A Coffee with CompBio

Lorena Pantano

Sciences

Business & Entrepreneuriat

Fréquence : 1 épisode/24j. Total Éps: 19

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!

Lire plusRéduire

Site

RSS

Classements récents

Dernières positions dans les classements Apple Podcasts et Spotify.

Apple Podcasts

Aucun classement récent disponible

Spotify

Aucun classement récent disponible

Liens partagés entre épisodes et podcasts

Liens présents dans les descriptions d'épisodes et autres podcasts les utilisant également.

https://www.linkedin.com/in/lpantano/
20 partages
https://www.linkedin.com/in/alexandra-bartlett-926b32109/
20 partages
https://www.linkedin.com/in/saba-nafees/
8 partages

https://forms.gle/ncwo6HZeN4uA9gPg7
18 partages

Qualité et score du flux RSS

Évaluation technique de la qualité et de la structure du flux RSS.

Qualité du flux RSS

Correct

Score global : 73%

Historique des publications

Répartition mensuelle des publications d'épisodes au fil des années.

Year

Derniers épisodes publiés

Liste des épisodes récents, avec titres, durées et descriptions.

A Comp-bio holiday calendar: 12 tools and tips to make this holiday season a fantastic one!

Saison 1 · Épisode 12

mardi 16 décembre 2025 • Durée 14:02

As our first season comes to an end, we would like to wish all of our listeners a very happy holiday season. But wait! We also have some presents for our listeners. In this episode of “A Coffee with Compbio”, Lorena Pantano and Alex Bartlett present 12 cool things in bioinformatics.

From a tool that will rescue you out of Python dependency hell to the one that can generate a functional genome, they discuss some really innovative tools that have been rolled out this year. Tune in to listen to these 12 tools and how you might use them!

And find out about the exciting announcement we have at the end!

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

Thanks to Amulya Shastryfor editing and management support.

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.

Lire plusRéduire

Collaboration Survival Guide for CompBio

Saison 1 · Épisode 11

mardi 11 novembre 2025 • Durée 16:59

What really happens when a wet lab scientist and a computational biologist sit down to plan an experiment? Spoiler: it's not always smooth sailing. In this episode of 'A Coffee with Compbio,' Lorena Pantano and Alex Bartlett chat with Amulya about the real talk nobody tells you about scientific collaborations.

They break down the three make-or-break moments of any project: that first meeting where you're figuring out if single-cell sequencing on mouse eyes is actually the move (hint: maybe start simpler), the data processing stage where quality issues rear their ugly head, and those uncomfortable conversations when results don't pan out.

What you'll learn:

How to redirect overambitious project plans without shutting people down
Smart ways to communicate technology limitations early
What to say when pilot data quality is... not great
Why being adaptable beats being rigid every single time

If you want to level up your collaboration game and avoid common pitfalls, grab your coffee and tune in.

Thanks to Amulya Shastryfor editing and management support.

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

Nine Samples and Zero Cells: A Week in the Life of Single-Cell Analysis

Saison 1 · Épisode 2

mardi 27 mai 2025 • Durée 16:13

In our first episode, Alex and Lorena dive into the messy reality of processing single-cell RNA-seq data. What started as a simple QC project turned into a week-long journey across compute environments, mysterious pipeline errors, and zero-cell outputs. Along the way, we troubleshoot issues with Cell Ranger, uncover strange sequencing artifacts, and reflect on lessons in data handling, pipeline reproducibility, and client communication.

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.

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

Lire plusRéduire

About Us

Saison 1 · Épisode 1

mardi 27 mai 2025 • Durée 06:19

In the introductory episode, Lorena and Alex introduce themselves and share how they got started in computational biology. They talk about their career paths, what drew them to bioinformatics, and some of the challenges and surprises they’ve encountered along the way. They also give a preview of the kinds of topics and practical issues they’ll be covering on the podcast, from workflow basics to troubleshooting analysis hiccups.

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

Lire plusRéduire

A coffee with Saranya Canchi - Fail, learn, repeat, the bioinformatics way!

Saison 1 · Épisode 10

mardi 14 octobre 2025 • Durée 13:55

In this episode of A Coffee with Comp Bio, hosts Alex Bartlett and Lorena Pantano sit down with Saranya Canchi, a computational biologist specializing in neuroscience. Together, they explore how to thrive as a self-directed learner in bioinformatics—tackling early challenges, learning through projects, and building problem-solving resilience. Saranya shares her journey as a self-taught bioinformatician, highlighting the importance of mastering the field’s unique language and embracing failure as part of growth. Whether you’re just starting out or looking to strengthen your learning approach, this conversation offers practical insights and inspiration for your bioinformatics journey.

https://s-canchi.github.io/

Thanks to Amulya Shastry for editing and management support.

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

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

(Dry) Lab Notebooks: The Importance of Recordkeeping in CompBio

Saison 1 · Épisode 9

mardi 23 septembre 2025 • Durée 16:11

Grab your coffee and join us for another episode of Coffee with CompBio!

This time, we kick things off with Amulya, a PhD student at Boston University and co-chair of Boston Women in Bioinformatics, who introduces us to llmr — a new Tidyverse-friendly tool for connecting with LLMs like ChatGPT, Gemini, and more. Think structured outputs, agent workflows, and even building your own chatbot in R.

Then we sit down with Lina Faller, a veteran in bioinformatics with nearly two decades of experience bridging software engineering, research, and pharma. Lina shares why she started blogging about sustainable data systems, leadership in tech, and the very human side of computational biology. We dive into one of her favorite topics: why computational biologists should keep lab notebooks (yes, even if your “lab” is just a laptop). From reproducibility to institutional memory to the art of “forensic bioinformatics,” Lina brings stories and advice that will be useful to anyone working with data.

If you’ve ever forgotten what you coded six months ago (we’ve all been there), or wondered how AI might fit into documentation and knowledge-sharing, this episode is for you.

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

https://ellmer.tidyverse.org/articles/ellmer.html

https://lfaller.github.io/

Thanks to Amulya Shastry for editing and management support.

The Spatial Transcriptomics Toolkit: Memory, Clustering, and Deconvolution

Saison 1 · Épisode 8

mardi 2 septembre 2025 • Durée 18:05

In this episode, Alex and Lorena tackle the computational challenges of spatial transcriptomics. Learn how BPCells can help you work with millions of cells without needing terabytes of RAM, discover how Banksy's neighborhood-aware clustering reveals tissue architecture, and explore RCTD's approach to cell type deconvolution in spatially-resolved data. Plus, Lorena reviews Positron, the new R-friendly IDE that's catching attention in the bioinformatics community.

https://github.com/bnprks/BPCells

https://github.com/prabhakarlab/Banksy

https://github.com/dmcable/spacexr

https://github.com/bcbio/spatial-reports

https://github.com/seandavi/awesome-single-cell

https://positron.posit.co/

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

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

Thanks to Amulya Shastry for editing and management support.

A coffee with Katie Hughes - First hand experience on transitioning to a Product Manager role

Saison 1 · Épisode 7

mardi 12 août 2025 • Durée 20:04

Alex Barlett and Lorena Pantano welcome Katie Hughes, their first guest, to discuss her career transition from bioinformatics to product management. Katie shares her journey from studying genetics, working in wet labs, and discovering a passion for bioinformatics, to eventually earning a master's degree in the field. She details her experience at various biotech companies, including Harvard Medical School, Moderna, Sonata Therapeutics, and Generate Biomedicines. Katie emphasizes the importance of curiosity, adaptability, and soft skills in making career transitions. She explains what a product manager does, differentiates it from similar roles, and outlines the skills and experiences that helped her succeed. The discussion also covers the day-to-day responsibilities of a product manager, the collaborative nature of the role, and advice for those interested in making a similar career shift.

Marty Cagan

How I AI podcast

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

Please get in touch if you or your business would like to help support this podcast.

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

Lire plusRéduire

R You Doing It Right? Modern Best Practices in R

Saison 1 · Épisode 6

mardi 29 juillet 2025 • Durée 21:27

Alex and I dig into the tricks and tips that'll actually make your R code work better. We're talking about ditching those old habits we all picked up and switching to code that works better in 2025. We cover over 10 solid habits that'll seriously boost your R game - everything from how you're reading and storing files, making plots that are publish-ready, theming, data manipulation, and setting up environments so your code works when you come back to it later. If you want to up your R skills, this one's got practical stuff you can start using right away.

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

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.

Lire plusRéduire

Fast, Private, and Publish-Ready Spatial Transcriptomics App (Without Losing Your Mind)

Saison 1 · Épisode 5

jeudi 10 juillet 2025 • Durée 26:39

In this episode, we journey through the real-life challenges of building interactive single cell spatial data visualizations for large projects. Lorena shares her recent adventure turning mountains of data into a web app using tools like Python, R, and the (tricky-to-pronounce) single-cell viewer Vitessce. She discusses the hurdles of image cropping, memory limits, Python-R crossovers, and why “just putting it online” isn’t as easy as it sounds—especially when it comes to privacy, deployment, and avoiding surprise cloud bills.If you’ve ever had a collaborator say, “Can you just build me an app I can play with?”, this episode is for you.

In the “Quick Sips” segment, Alex and Lorena share tips on automating code linting with GitHub Actions. Finally, in our “Brewing Up Answers” segment, we chat about managing people in academia vs. industry, and why it’s a very different ballgame on each side of the fence.

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.

Podcasts Similaires Basées sur le Contenu

Découvrez des podcasts liées à A Coffee with CompBio. Explorez des podcasts avec des thèmes, sujets, et formats similaires. Ces similarités sont calculées grâce à des données tangibles, pas d'extrapolations !