Pat Taylor
@paddyktaylor.bsky.social
Up and down the coast we're all looking to make waters safer for whales and all other marine life. Really great to hear about the people volunteering their space, time, and effort to monitor marine mammal activity. www.cbc.ca/news/canada/... #marineLife #ocean #westCoast #whales
B.C. residents host whale detection devices on their properties in bid to protect animals | CBC News
From infrared thermal cameras to hydrophones, these B.C. residents offered up space on their properties as researchers look to help safeguard marine mammals.
www.cbc.ca
November 25, 2025 at 4:32 PM
Up and down the coast we're all looking to make waters safer for whales and all other marine life. Really great to hear about the people volunteering their space, time, and effort to monitor marine mammal activity. www.cbc.ca/news/canada/... #marineLife #ocean #westCoast #whales
Reposted by Pat Taylor
We are looking for a graduate student (MSc in Health Sciences) in microbiome research to study chronic wound infections. Join our interdisciplinary team at Carleton University, Ottawa.
March 27, 2025 at 3:54 PM
We are looking for a graduate student (MSc in Health Sciences) in microbiome research to study chronic wound infections. Join our interdisciplinary team at Carleton University, Ottawa.
Reposted by Pat Taylor
So glad this is finally out. The method has been instrumental in allowing us to compress the AllTheBacteria data - ~2 million bacterial genomes shrink from 3Terabytes (gzipped) to 100Gb using phylogenetic compression. Great work by @brinda.eu
Our latest paper, in which @brinda.eu (along with @zaminiqbal.bsky.social and others) introduces phylogenetic compression for storage and search of enormous microbial genome libraries, was published today in @naturemethods.bsky.social:
rdcu.be/eg4OA
1/
rdcu.be/eg4OA
1/
Efficient and robust search of microbial genomes via phylogenetic compression
Nature Methods - Phylogenetic compression achieves performant and lossless compression of massive collections of microbial genomes, facilitating fast BLAST-like search and versatile alignment tasks.
rdcu.be
April 9, 2025 at 10:27 PM
So glad this is finally out. The method has been instrumental in allowing us to compress the AllTheBacteria data - ~2 million bacterial genomes shrink from 3Terabytes (gzipped) to 100Gb using phylogenetic compression. Great work by @brinda.eu
Bog iron of the sea? I'm putting a bet down that chemotrophs have a role in forming these near mineral rich seeps #geobiochemistry #microbiology
www.cbc.ca/news/science...
www.cbc.ca/news/science...
Researchers say oxygen is being produced on the ocean floor. The mining company funding them isn't happy | CBC News
The discovery of oxygen being produced on the ocean floor — apparently by ancient lumps of metal — has put the scientists behind the landmark study at odds with the Canada-based mining company that funded them.
www.cbc.ca
July 25, 2024 at 1:09 PM
Bog iron of the sea? I'm putting a bet down that chemotrophs have a role in forming these near mineral rich seeps #geobiochemistry #microbiology
www.cbc.ca/news/science...
www.cbc.ca/news/science...
Was just thinking on this again. I've found that's specifically trying to use #mamba through a script that causes problems. Specifically calling #conda works okay. 🧪🖥🧬🔬🌾
Anybody else roll those dice by activating conda environments from within their bash script? Seems to have worked pretty well for me so far. Only failed today for the first time while running the tool bismark for methylation calls. 🧪 💻🧬 #bioinformatics #genomics
November 11, 2023 at 4:21 PM
One of our cats had a visit to the vet recently. The doctor asked us to monitor their breathing to get an idea whether a heart murmur may be a problem. I took that "just check once a week" and turned it into full data collection and analysis.
#cats #datascience #ggplot2 #scienceexperiment
#cats #datascience #ggplot2 #scienceexperiment
November 11, 2023 at 7:56 AM
One of our cats had a visit to the vet recently. The doctor asked us to monitor their breathing to get an idea whether a heart murmur may be a problem. I took that "just check once a week" and turned it into full data collection and analysis.
#cats #datascience #ggplot2 #scienceexperiment
#cats #datascience #ggplot2 #scienceexperiment
Anybody else roll those dice by activating conda environments from within their bash script? Seems to have worked pretty well for me so far. Only failed today for the first time while running the tool bismark for methylation calls. 🧪 💻🧬 #bioinformatics #genomics
September 23, 2023 at 7:07 PM
Anybody else roll those dice by activating conda environments from within their bash script? Seems to have worked pretty well for me so far. Only failed today for the first time while running the tool bismark for methylation calls. 🧪 💻🧬 #bioinformatics #genomics
Woo hoo! Just like that, for the first time in my career, I've gone the whole distance from extraction to actually doing the NGS run myself. Wasn't so bad :S Now time to keep on going, time to do the analysis! Wee! 🧪🔬🌾 #agronomy #genomics
September 21, 2023 at 5:26 PM
Woo hoo! Just like that, for the first time in my career, I've gone the whole distance from extraction to actually doing the NGS run myself. Wasn't so bad :S Now time to keep on going, time to do the analysis! Wee! 🧪🔬🌾 #agronomy #genomics
"Plain good luck." Pretty much sums up why antibiotic resistance hasn't been an even more rampant problem. www.cbc.ca/news/health/...
September 16, 2023 at 3:48 PM
"Plain good luck." Pretty much sums up why antibiotic resistance hasn't been an even more rampant problem. www.cbc.ca/news/health/...
Reposted by Pat Taylor
My reach here isn't great yet, so maybe people can help spread the word.
We're hiring a postdoctoral scholar as part of an NSF planning grant to support a bioinformatics research center in global change ecology at TXST.
Details here: fuesslab.wp.txstate.edu/opportunities/
Apply by 9/15!
We're hiring a postdoctoral scholar as part of an NSF planning grant to support a bioinformatics research center in global change ecology at TXST.
Details here: fuesslab.wp.txstate.edu/opportunities/
Apply by 9/15!
opportunities – Symbiommunity Lab
fuesslab.wp.txstate.edu
August 30, 2023 at 6:36 PM
My reach here isn't great yet, so maybe people can help spread the word.
We're hiring a postdoctoral scholar as part of an NSF planning grant to support a bioinformatics research center in global change ecology at TXST.
Details here: fuesslab.wp.txstate.edu/opportunities/
Apply by 9/15!
We're hiring a postdoctoral scholar as part of an NSF planning grant to support a bioinformatics research center in global change ecology at TXST.
Details here: fuesslab.wp.txstate.edu/opportunities/
Apply by 9/15!
Reposted by Pat Taylor
Hey microbiome people, here's yet another feed to add to the list: MicrobiomeSky!
At this stage anything with "microbiome" or #microbiome will be included. Enjoy!
@markrubin.bsky.social
At this stage anything with "microbiome" or #microbiome will be included. Enjoy!
@markrubin.bsky.social
August 30, 2023 at 10:30 AM
Hey microbiome people, here's yet another feed to add to the list: MicrobiomeSky!
At this stage anything with "microbiome" or #microbiome will be included. Enjoy!
@markrubin.bsky.social
At this stage anything with "microbiome" or #microbiome will be included. Enjoy!
@markrubin.bsky.social
Reposted by Pat Taylor
Is there a feed for talking about justice and STEMM 🧪(diversity, inclusion, accessibility, access)?
August 30, 2023 at 1:15 PM
Is there a feed for talking about justice and STEMM 🧪(diversity, inclusion, accessibility, access)?
Reposted by Pat Taylor
How big were the Aquarian Foundation's gun forts? Hard to know an average size, tbh, because they were built in many styles! This stone one I'm crouched inside was only about 1.5 m wide (inside), but there were 2 types of wood forts, & a possible dugout fort, for which we we have no sizes (yet 😉)🏺
August 28, 2023 at 4:53 PM
How big were the Aquarian Foundation's gun forts? Hard to know an average size, tbh, because they were built in many styles! This stone one I'm crouched inside was only about 1.5 m wide (inside), but there were 2 types of wood forts, & a possible dugout fort, for which we we have no sizes (yet 😉)🏺
Reposted by Pat Taylor
I've just learned my article was included in an upcoming OER archaeology 🏺 textbook chapter about pseudoarch (written by someone who I've learned a lot from over the years)! Very cool 😊
Fun fact: this article was labeled as "controversial" in the archaeology subreddit 😅
Fun fact: this article was labeled as "controversial" in the archaeology subreddit 😅
If you want to learn more, I wrote this a couple of years ago. I'm also wrapping up a much more in depth paper focused on a few case studies of extremely violent white suprms. and how they value pseudoarch + use it as a recruiting tool 😬
https://www.sapiens.org/archaeology/pseudoarchaeology-racism/
https://www.sapiens.org/archaeology/pseudoarchaeology-racism/
Did Aliens Build the Pyramids? And Other Racist Theories
Pseudoarchaeology, conspiracy theories that ancient civilizations were founded by aliens or the denizens of Atlantis, are dangerous.
www.sapiens.org
August 26, 2023 at 12:52 AM
I've just learned my article was included in an upcoming OER archaeology 🏺 textbook chapter about pseudoarch (written by someone who I've learned a lot from over the years)! Very cool 😊
Fun fact: this article was labeled as "controversial" in the archaeology subreddit 😅
Fun fact: this article was labeled as "controversial" in the archaeology subreddit 😅
Reposted by Pat Taylor
Huge win!
Cultivation of marine bacteria of the SAR202 clade www.nature.com/articles/s41... #jcampubs
Cultivation of marine bacteria of the SAR202 clade www.nature.com/articles/s41... #jcampubs
Cultivation of marine bacteria of the SAR202 clade - Nature Communications
Bacteria of the SAR202 clade are ubiquitously distributed in the ocean, but their biology is poorly understood due to the lack of cultivated isolates. Here, Lim et al. report the cultivation of marine...
www.nature.com
August 23, 2023 at 1:35 PM
Huge win!
Cultivation of marine bacteria of the SAR202 clade www.nature.com/articles/s41... #jcampubs
Cultivation of marine bacteria of the SAR202 clade www.nature.com/articles/s41... #jcampubs
Reposted by Pat Taylor
Alright, Vibrio natriegens S72 cells are spiked and system is running. Collecting 940nm optical density readings every second. Let's see if I can catch that diauxic shift between mannitol and sorbitol. Should look similar to the curve below from E. coli K-12 🤞
August 26, 2023 at 10:10 AM
Alright, Vibrio natriegens S72 cells are spiked and system is running. Collecting 940nm optical density readings every second. Let's see if I can catch that diauxic shift between mannitol and sorbitol. Should look similar to the curve below from E. coli K-12 🤞
Reposted by Pat Taylor
EXCLUSIVE: The failed SpaceX launch left acres of damage that had US wildlife officials and biologists in disbelief, documents seen by Bloomberg show
SpaceX Blast Left Officials in Disbelief Over Environmental Damage
Fish and Wildlife Service biologists expressed frustrations in emails obtained by Bloomberg.
www.bloomberg.com
August 25, 2023 at 6:48 PM
EXCLUSIVE: The failed SpaceX launch left acres of damage that had US wildlife officials and biologists in disbelief, documents seen by Bloomberg show
Broad question to the agronomy, bioinformatics, microbiology communities, has anyone previously attended the Plant and Animal Genomics Conferences? Is there much microbial genomics representation within any sessions? Interested in attending PAG31 and curious about what microbio might be there. 🧪🌾🔬
August 25, 2023 at 5:14 PM
Broad question to the agronomy, bioinformatics, microbiology communities, has anyone previously attended the Plant and Animal Genomics Conferences? Is there much microbial genomics representation within any sessions? Interested in attending PAG31 and curious about what microbio might be there. 🧪🌾🔬
Reposted by Pat Taylor
Dear blskyers,
In collaboration with Kristian Ullrich, I'd like to present SNPless, a Nextflow pipeline developed for time series analysis of microbial genomics data 🧬.
github.com/kullrich/snp...
In collaboration with Kristian Ullrich, I'd like to present SNPless, a Nextflow pipeline developed for time series analysis of microbial genomics data 🧬.
github.com/kullrich/snp...
August 24, 2023 at 6:49 AM
Dear blskyers,
In collaboration with Kristian Ullrich, I'd like to present SNPless, a Nextflow pipeline developed for time series analysis of microbial genomics data 🧬.
github.com/kullrich/snp...
In collaboration with Kristian Ullrich, I'd like to present SNPless, a Nextflow pipeline developed for time series analysis of microbial genomics data 🧬.
github.com/kullrich/snp...
Reposted by Pat Taylor
Just watched They Cloned Tyrone and that is a great movie! Anyone looking for some sci-fi at its best when making commentary on our world should watch it.
August 22, 2023 at 4:43 AM
Just watched They Cloned Tyrone and that is a great movie! Anyone looking for some sci-fi at its best when making commentary on our world should watch it.
Reposted by Pat Taylor
Lots of new folks here (welcome!), so it's time for a re-introduction! I'm a historic and contemporary archaeologist. My research explores the archaeology of conspirituality, as well as the use of archaeology and pseudoarchaeology by North American far-right individuals/groups 🏺
If you want to learn more, I wrote this a couple of years ago. I'm also wrapping up a much more in depth paper focused on a few case studies of extremely violent white suprms. and how they value pseudoarch + use it as a recruiting tool 😬
https://www.sapiens.org/archaeology/pseudoarchaeology-racism/
https://www.sapiens.org/archaeology/pseudoarchaeology-racism/
Did Aliens Build the Pyramids? And Other Racist Theories
Pseudoarchaeology, conspiracy theories that ancient civilizations were founded by aliens or the denizens of Atlantis, are dangerous.
www.sapiens.org
August 21, 2023 at 10:26 PM
Lots of new folks here (welcome!), so it's time for a re-introduction! I'm a historic and contemporary archaeologist. My research explores the archaeology of conspirituality, as well as the use of archaeology and pseudoarchaeology by North American far-right individuals/groups 🏺
After a great day getting to be @cultarchaeo.bsky.social's assistant I'm still thinking about how almost 100 years ago there was a cult near by that started with a message of self improvement and bettering each other and descending into hate and paranoia.
August 20, 2023 at 9:54 PM
After a great day getting to be @cultarchaeo.bsky.social's assistant I'm still thinking about how almost 100 years ago there was a cult near by that started with a message of self improvement and bettering each other and descending into hate and paranoia.
Reposted by Pat Taylor
Since getting onto DeCourcy, @paddyktaylor.bsky.social and I spent a few hours wandering around Brother XII's gunforts. Up next is the community gathering at the firehall!
August 19, 2023 at 7:41 PM
Since getting onto DeCourcy, @paddyktaylor.bsky.social and I spent a few hours wandering around Brother XII's gunforts. Up next is the community gathering at the firehall!
Ooh neat, I just discovered the Micro Binfie Podcast! Absolutely going to make this a regular one to listen to. https://microbinfie.github.io/pages/open_art.html 🧪
Open Art - MicroBinfie Podcast
This is the website for the MicroBinfie Podcast, a discussion about the intersection between bioinformatics and public health.
microbinfie.github.io
August 11, 2023 at 2:44 AM
Ooh neat, I just discovered the Micro Binfie Podcast! Absolutely going to make this a regular one to listen to. https://microbinfie.github.io/pages/open_art.html 🧪