Ask Erin / Dear Beth
@askerindearbeth.bsky.social
The most sparkly biweekly bioimage analysis advice podcast you're likely to find! Episodes: https://www.youtube.com/@AskErinDearBeth; Materials: https://ciminilab.github.io/AskErin_DearBeth/ . Starring @erinweisbart.bsky.social and @bethcimini.bsky.social
Reposted by Ask Erin / Dear Beth
Extra special bonus - video of Erin and I in the same place! It does happen!
February 17, 2026 at 2:38 PM
Extra special bonus - video of Erin and I in the same place! It does happen!
Ep 25 - from our new AE/DB Bsky account! It's a great one from @erinweisbart.bsky.social - once we've done Cell Painting and gotten our data, how do we interpret the measurements into biology? She and @bethcimini.bsky.social walk you through it. PLUS, in honor of our silver episode, bonuses (1/2)
February 17, 2026 at 2:30 PM
Ep 25 - from our new AE/DB Bsky account! It's a great one from @erinweisbart.bsky.social - once we've done Cell Painting and gotten our data, how do we interpret the measurements into biology? She and @bethcimini.bsky.social walk you through it. PLUS, in honor of our silver episode, bonuses (1/2)
Reposted by Ask Erin / Dear Beth
Check out this fun post from @bethcimini.bsky.social & @erinweisbart.bsky.social, where they interview each other about their popular image analysis video podcast, ‘Ask Erin/Dear Beth’ @askerindearbeth.bsky.social.
Episodes are posted every 2 weeks (ish).
focalplane.biologists.com/2026/02/16/a...
Episodes are posted every 2 weeks (ish).
focalplane.biologists.com/2026/02/16/a...
Ask Erin/Dear Beth - an image analysis tips and tricks video podcast - FocalPlane
Ask Erin/Dear Beth - an image analysis tips and tricks video podcast -
focalplane.biologists.com
February 16, 2026 at 4:08 PM
Check out this fun post from @bethcimini.bsky.social & @erinweisbart.bsky.social, where they interview each other about their popular image analysis video podcast, ‘Ask Erin/Dear Beth’ @askerindearbeth.bsky.social.
Episodes are posted every 2 weeks (ish).
focalplane.biologists.com/2026/02/16/a...
Episodes are posted every 2 weeks (ish).
focalplane.biologists.com/2026/02/16/a...
Reposted by Ask Erin / Dear Beth
Ep 24 - Understanding your thresholding options is the diff between a win and a loss in SO MANY workflows - gain that intuition, and SO MUCH is easier. The 1st of 3 episodes discussing why - inspired by OUR FIRST REAL READER QUESTION. @erinweisbart.bsky.social and I are actual advice columnists now!
February 2, 2026 at 4:21 PM
Ep 24 - Understanding your thresholding options is the diff between a win and a loss in SO MANY workflows - gain that intuition, and SO MUCH is easier. The 1st of 3 episodes discussing why - inspired by OUR FIRST REAL READER QUESTION. @erinweisbart.bsky.social and I are actual advice columnists now!
Reposted by Ask Erin / Dear Beth
We answered our first viewer-submitted question in our "advice column" podcast! Thresholding when some areas are bright and some are dark is easy in CellProfiler with just one setting!
Part 1/3 of a series on thresholding so keep an eye out for more w/ @bethcimini.bsky.social
youtu.be/ynrPqsOZVYE
Part 1/3 of a series on thresholding so keep an eye out for more w/ @bethcimini.bsky.social
youtu.be/ynrPqsOZVYE
Thresholding in CellProfiler Part 1: Adaptive Thresholding - AskErinDearBeth Episode 24
YouTube video by Ask Erin, Dear Beth
youtu.be
February 2, 2026 at 6:29 PM
We answered our first viewer-submitted question in our "advice column" podcast! Thresholding when some areas are bright and some are dark is easy in CellProfiler with just one setting!
Part 1/3 of a series on thresholding so keep an eye out for more w/ @bethcimini.bsky.social
youtu.be/ynrPqsOZVYE
Part 1/3 of a series on thresholding so keep an eye out for more w/ @bethcimini.bsky.social
youtu.be/ynrPqsOZVYE
Reposted by Ask Erin / Dear Beth
@bethcimini.bsky.social and I talk about the Cell Painting Assay a LOT, especially on our podcast Ask Erin/Dear Beth, so we figured it was about time to talk about what it actually is! youtu.be/9-d6DoHtgUY
h/t @drannecarpenter.bsky.social
#science #biology #cellpainting #microscopy #imageanalysis
h/t @drannecarpenter.bsky.social
#science #biology #cellpainting #microscopy #imageanalysis
Introduction to the Cell Painting Assay - AskErinDearBeth Episode 23
YouTube video by Ask Erin, Dear Beth
youtu.be
January 26, 2026 at 6:15 PM
@bethcimini.bsky.social and I talk about the Cell Painting Assay a LOT, especially on our podcast Ask Erin/Dear Beth, so we figured it was about time to talk about what it actually is! youtu.be/9-d6DoHtgUY
h/t @drannecarpenter.bsky.social
#science #biology #cellpainting #microscopy #imageanalysis
h/t @drannecarpenter.bsky.social
#science #biology #cellpainting #microscopy #imageanalysis
Reposted by Ask Erin / Dear Beth
Ep 23 - So what actually IS CellPainting anyway? You may have heard of it if you're say, a fan of the @drannecarpenter.bsky.social - @shantanu-singh.cc lab (and who isn't????), but what, you know, is it? Let @erinweisbart.bsky.social break it down for you!
youtu.be/9-d6DoHtgUY
youtu.be/9-d6DoHtgUY
January 20, 2026 at 5:03 PM
Ep 23 - So what actually IS CellPainting anyway? You may have heard of it if you're say, a fan of the @drannecarpenter.bsky.social - @shantanu-singh.cc lab (and who isn't????), but what, you know, is it? Let @erinweisbart.bsky.social break it down for you!
youtu.be/9-d6DoHtgUY
youtu.be/9-d6DoHtgUY
Reposted by Ask Erin / Dear Beth
Ep 22 - while we all love CellProfiler (right??), we know that often the challenging part is handling the "bookkeeping" to get your data into it in the first place. @erinweisbart.bsky.social and I do a quick overview, and then point to great longer-form materials. Welcome to AE/DB 2026!
January 5, 2026 at 5:21 PM
Ep 22 - while we all love CellProfiler (right??), we know that often the challenging part is handling the "bookkeeping" to get your data into it in the first place. @erinweisbart.bsky.social and I do a quick overview, and then point to great longer-form materials. Welcome to AE/DB 2026!
Reposted by Ask Erin / Dear Beth
The videos from this year's I2K are now online! Check out the Ask Erin / Dear Beth "Ask Us Anything" below, or the whole conference at www.i2kconference.org
Making these 24 (with bonuses) episodes might be the most fun thing I did in 2025 - see you with more AE/DB content in 2026!
Making these 24 (with bonuses) episodes might be the most fun thing I did in 2025 - see you with more AE/DB content in 2026!
Image Analysis Ask Us Anything - A special LIVE Ask Erin/Dear Beth event!
YouTube video by I2K Conference
youtu.be
December 22, 2025 at 9:47 PM
The videos from this year's I2K are now online! Check out the Ask Erin / Dear Beth "Ask Us Anything" below, or the whole conference at www.i2kconference.org
Making these 24 (with bonuses) episodes might be the most fun thing I did in 2025 - see you with more AE/DB content in 2026!
Making these 24 (with bonuses) episodes might be the most fun thing I did in 2025 - see you with more AE/DB content in 2026!
Reposted by Ask Erin / Dear Beth
Episode 21 - when we talk about doing image augmentations for deep learning, what do we MEAN? @erinweisbart.bsky.social uses CellProfiler to demonstrate exactly how we transform images to make neural networks more robust. PLUS (1/2)
December 22, 2025 at 9:47 PM
Episode 21 - when we talk about doing image augmentations for deep learning, what do we MEAN? @erinweisbart.bsky.social uses CellProfiler to demonstrate exactly how we transform images to make neural networks more robust. PLUS (1/2)
Reposted by Ask Erin / Dear Beth
20 eps - wow! Today, @erinweisbart.bsky.social and I introduce BioimagingGuide.org, a fantastic resource we made in partnership with @bioimagingna.bsky.social , your guide to "what you don't know you don't know" about imaging and analysis. Friendly and in 4 languages (and counting!); check it today!
December 8, 2025 at 6:55 PM
20 eps - wow! Today, @erinweisbart.bsky.social and I introduce BioimagingGuide.org, a fantastic resource we made in partnership with @bioimagingna.bsky.social , your guide to "what you don't know you don't know" about imaging and analysis. Friendly and in 4 languages (and counting!); check it today!
Reposted by Ask Erin / Dear Beth
Was lovely to see many of you @ I2K! Despite having major FOMO about missing so much stuff this fall (GloBIAS! CytoData! FoundingGIDE! CBIAS!), conferences ARE usually a great way to find @erinweisbart.bsky.social and I. In Episode 19, we talk through great societies/meetings we think you'll enjoy!
November 24, 2025 at 10:51 PM
Was lovely to see many of you @ I2K! Despite having major FOMO about missing so much stuff this fall (GloBIAS! CytoData! FoundingGIDE! CBIAS!), conferences ARE usually a great way to find @erinweisbart.bsky.social and I. In Episode 19, we talk through great societies/meetings we think you'll enjoy!
Reposted by Ask Erin / Dear Beth
Episode 18 - @erinweisbart.bsky.social and I hung out IRL at @sbi2.bsky.social, forgot to film TOGETHER, but did ask our friends hard-hitting interview questions. Silliness ensued!
Want to hang with us? We're doing a LIVE AMA next week at I2K - Wed Nov 19th, 1PM EST. Sign up at i2kconference.org !
Want to hang with us? We're doing a LIVE AMA next week at I2K - Wed Nov 19th, 1PM EST. Sign up at i2kconference.org !
November 11, 2025 at 3:13 PM
Episode 18 - @erinweisbart.bsky.social and I hung out IRL at @sbi2.bsky.social, forgot to film TOGETHER, but did ask our friends hard-hitting interview questions. Silliness ensued!
Want to hang with us? We're doing a LIVE AMA next week at I2K - Wed Nov 19th, 1PM EST. Sign up at i2kconference.org !
Want to hang with us? We're doing a LIVE AMA next week at I2K - Wed Nov 19th, 1PM EST. Sign up at i2kconference.org !
Reposted by Ask Erin / Dear Beth
This week on AskErinDearBeth, @bethcimini.bsky.social and I ask some hard hitting questions, (wo)man-on-the-street-style, at SBI2 2025 conference. Let us know, what's *your* favorite CellProfiler feature? And chime in on the debate: confocal or wide field microscopy? youtu.be/99L2ESvAt5I
Women on the Street Interviews: Hard Hitting Questions at SBI2 2025 - AskErinDearBeth Episode 18
YouTube video by Ask Erin, Dear Beth
youtu.be
November 11, 2025 at 1:50 AM
This week on AskErinDearBeth, @bethcimini.bsky.social and I ask some hard hitting questions, (wo)man-on-the-street-style, at SBI2 2025 conference. Let us know, what's *your* favorite CellProfiler feature? And chime in on the debate: confocal or wide field microscopy? youtu.be/99L2ESvAt5I
Reposted by Ask Erin / Dear Beth
Episode 17 - perhaps my favorite yet. How do you write a forum.image.sc post that will get you the answers you need without revealing information you don't want to tell? @erinweisbart.bsky.social and I go through what the experts need to know to help you. Post your sci q's today on forum.image.sc !
October 27, 2025 at 6:20 PM
Episode 17 - perhaps my favorite yet. How do you write a forum.image.sc post that will get you the answers you need without revealing information you don't want to tell? @erinweisbart.bsky.social and I go through what the experts need to know to help you. Post your sci q's today on forum.image.sc !
Reposted by Ask Erin / Dear Beth
Episode 16 - Learn more about the Cell Painting Gallery, a free repository of nearly a petabyte of images and imaging data, curated by the incredibly talented @erinweisbart.bsky.social . Truly a goldmine for big-data lovers everywhere!
October 14, 2025 at 11:48 AM
Episode 16 - Learn more about the Cell Painting Gallery, a free repository of nearly a petabyte of images and imaging data, curated by the incredibly talented @erinweisbart.bsky.social . Truly a goldmine for big-data lovers everywhere!
Reposted by Ask Erin / Dear Beth
Episode 15 - do your images look, well, weird when you open them on your computer? Bad? Weird-and-bad? While we can't tell you EXACTLY what's going on, in this edition of Ask Erin/Dear Beth, @erinweisbart.bsky.social and I go over the most common "ugh, why does it look like THAT?" cases.
September 29, 2025 at 7:45 PM
Episode 15 - do your images look, well, weird when you open them on your computer? Bad? Weird-and-bad? While we can't tell you EXACTLY what's going on, in this edition of Ask Erin/Dear Beth, @erinweisbart.bsky.social and I go over the most common "ugh, why does it look like THAT?" cases.
Reposted by Ask Erin / Dear Beth
Episode 14 - In which @erinweisbart.bsky.social gives us a FANTASTIC tour through CellProfiler's illumination correction modules, how and when to use different kinds of illumination correction, and more. So so useful!
September 15, 2025 at 10:54 PM
Episode 14 - In which @erinweisbart.bsky.social gives us a FANTASTIC tour through CellProfiler's illumination correction modules, how and when to use different kinds of illumination correction, and more. So so useful!
Reposted by Ask Erin / Dear Beth
While image analysis may be our primary focus, @bethcimini.bsky.social and I have many shared nerderies. Love of #GBBO is one of them. Hear about my family's Great British Bake Off fantasy league and a couple of our favorite recipes on this ~bonus~ episode of AskErinDearBeth! youtu.be/hKEO9UeP1yw
Baking Nerds Talk GBBO - AskErinDearBeth Episode 13 5
YouTube video by Ask Erin, Dear Beth
youtu.be
September 9, 2025 at 4:36 PM
While image analysis may be our primary focus, @bethcimini.bsky.social and I have many shared nerderies. Love of #GBBO is one of them. Hear about my family's Great British Bake Off fantasy league and a couple of our favorite recipes on this ~bonus~ episode of AskErinDearBeth! youtu.be/hKEO9UeP1yw
Reposted by Ask Erin / Dear Beth
Episode 13 - so why is it so important to use the small brush in ilastik (ep 11)? How do random forests WORK, anyway? Join @erinweisbart.bsky.social and I as we explore using #marimo!
Looking for notebooks/pipelines/images, or want to submit a q? Check our site! ciminilab.github.io/AskErin_Dear...
Looking for notebooks/pipelines/images, or want to submit a q? Check our site! ciminilab.github.io/AskErin_Dear...
September 2, 2025 at 12:20 PM
Episode 13 - so why is it so important to use the small brush in ilastik (ep 11)? How do random forests WORK, anyway? Join @erinweisbart.bsky.social and I as we explore using #marimo!
Looking for notebooks/pipelines/images, or want to submit a q? Check our site! ciminilab.github.io/AskErin_Dear...
Looking for notebooks/pipelines/images, or want to submit a q? Check our site! ciminilab.github.io/AskErin_Dear...
Reposted by Ask Erin / Dear Beth
Episode 12- my lucky number! Might become yours too if you have lots of cell outline images you need to make into masks - @erinweisbart.bsky.social shows you our plugin for this, along with SUCH a clever trick (that I never would have thought of) for cleaning up small and/or edge masks. Enjoy!
August 18, 2025 at 1:19 PM
Episode 12- my lucky number! Might become yours too if you have lots of cell outline images you need to make into masks - @erinweisbart.bsky.social shows you our plugin for this, along with SUCH a clever trick (that I never would have thought of) for cleaning up small and/or edge masks. Enjoy!
Reposted by Ask Erin / Dear Beth
Episode 11 - In which @erinweisbart.bsky.social and I talk about just how much we love ilastik (@ilastik-team.bsky.social) and how it's great for so many problems! Also, that you should use a small brush.
August 5, 2025 at 12:38 PM
Episode 11 - In which @erinweisbart.bsky.social and I talk about just how much we love ilastik (@ilastik-team.bsky.social) and how it's great for so many problems! Also, that you should use a small brush.
Reposted by Ask Erin / Dear Beth
Episode 10 - we've jumped an order of magnitude! Thanks for all the support, @erinweisbart.bsky.social and I totally appreciate it.
If you have artifact-free data, you can skip this one;
for us mere mortals, Erin talks about masks, alignment, and seeing how far from a mask an object is. So useful!
If you have artifact-free data, you can skip this one;
for us mere mortals, Erin talks about masks, alignment, and seeing how far from a mask an object is. So useful!
July 22, 2025 at 4:08 PM
Episode 10 - we've jumped an order of magnitude! Thanks for all the support, @erinweisbart.bsky.social and I totally appreciate it.
If you have artifact-free data, you can skip this one;
for us mere mortals, Erin talks about masks, alignment, and seeing how far from a mask an object is. So useful!
If you have artifact-free data, you can skip this one;
for us mere mortals, Erin talks about masks, alignment, and seeing how far from a mask an object is. So useful!
Reposted by Ask Erin / Dear Beth
Episode 9 - maybe the #1 question we get on forum.image.sc is "how can I find cells and figure out what fraction are positive for marker X?". Since this is CellProfiler, we show you not 1 but 3 ways to do it, including a throwback to Ep 7. Let @erinweisbart.bsky.social and I help you get it done!
July 7, 2025 at 3:12 PM
Episode 9 - maybe the #1 question we get on forum.image.sc is "how can I find cells and figure out what fraction are positive for marker X?". Since this is CellProfiler, we show you not 1 but 3 ways to do it, including a throwback to Ep 7. Let @erinweisbart.bsky.social and I help you get it done!
Reposted by Ask Erin / Dear Beth
Episode 8 - CellProfiler does a lot, but could it do EVEN MORE? Hop on in to let @erinweisbart.bsky.social tell you all about CellProfiler plugins - where to find them, how to use them, and how they can add the Power Of Deep Learning to your local copy of CellProfiler!
June 23, 2025 at 1:44 PM
Episode 8 - CellProfiler does a lot, but could it do EVEN MORE? Hop on in to let @erinweisbart.bsky.social tell you all about CellProfiler plugins - where to find them, how to use them, and how they can add the Power Of Deep Learning to your local copy of CellProfiler!