RCAC Bioinformatics @ Purdue University
@rcac-bioinfo.bsky.social
🌐 Supporting bioinformatics research @ Purdue and beyond.
🔬 Expertise in various genomics, and data analysis for diverse species.
🚀 Computational resources, pipeline development, and researcher guidance.
📚 Tutorials, tools, community support (& more)
🔬 Expertise in various genomics, and data analysis for diverse species.
🚀 Computational resources, pipeline development, and researcher guidance.
📚 Tutorials, tools, community support (& more)
Reposted by RCAC Bioinformatics @ Purdue University
NEW: HiFi now brings Hi-C to #HiFisequencing with CiFi. Traditional short-read Hi-C falls short in repetitive and low-complexity regions, but #PacBio HiFi delivers with superior accuracy and lower input needs. bit.ly/4b8k10m
#AGBT #AGBTGM
#AGBT #AGBTGM
CiFi: Accurate long-read chromatin conformation capture with low-input requirements | bioRxiv
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
bit.ly
February 21, 2025 at 8:03 PM
NEW: HiFi now brings Hi-C to #HiFisequencing with CiFi. Traditional short-read Hi-C falls short in repetitive and low-complexity regions, but #PacBio HiFi delivers with superior accuracy and lower input needs. bit.ly/4b8k10m
#AGBT #AGBTGM
#AGBT #AGBTGM
Reposted by RCAC Bioinformatics @ Purdue University
With #PacBio Compatible, #HiFisequencing fits seamlessly into any lab and any omics application. Visit our suite at #AGBT in Lanai Suite 289 to explore our industry partnerships and learn how PacBio technology can elevate your research. #AGBT25
February 24, 2025 at 5:01 PM
With #PacBio Compatible, #HiFisequencing fits seamlessly into any lab and any omics application. Visit our suite at #AGBT in Lanai Suite 289 to explore our industry partnerships and learn how PacBio technology can elevate your research. #AGBT25
Reposted by RCAC Bioinformatics @ Purdue University
New preprint featuring my favorite maize-relatives, the Andropogoneae! We sequenced the genomes of 27 species, including lemongrass, kangaroo grass, little and big bluestem, and more -- key species that shape grasslands and prairies worldwide. www.biorxiv.org/content/10.1...
January 27, 2025 at 9:33 PM
New preprint featuring my favorite maize-relatives, the Andropogoneae! We sequenced the genomes of 27 species, including lemongrass, kangaroo grass, little and big bluestem, and more -- key species that shape grasslands and prairies worldwide. www.biorxiv.org/content/10.1...
🚀 EM Server Webinar: Protein Modeling with DiffModeler & DeepMainmast! 🧬
📅 Feb 5, 2025
🎙️ Dr. Daisuke Kihara, Dr. Genki Terashi, Pranav Punuru
Topics: DiffModeler & DeepMainmast advanced cryo-EM protein modeling, DAQ tools, CryoREAD & more.
🔗 register: kiharalab-events-5ab900351568.herokuapp.com
📅 Feb 5, 2025
🎙️ Dr. Daisuke Kihara, Dr. Genki Terashi, Pranav Punuru
Topics: DiffModeler & DeepMainmast advanced cryo-EM protein modeling, DAQ tools, CryoREAD & more.
🔗 register: kiharalab-events-5ab900351568.herokuapp.com
EM Server
Kiharalab EM Server
em.kiharalab.org
January 31, 2025 at 12:13 AM
🚀 EM Server Webinar: Protein Modeling with DiffModeler & DeepMainmast! 🧬
📅 Feb 5, 2025
🎙️ Dr. Daisuke Kihara, Dr. Genki Terashi, Pranav Punuru
Topics: DiffModeler & DeepMainmast advanced cryo-EM protein modeling, DAQ tools, CryoREAD & more.
🔗 register: kiharalab-events-5ab900351568.herokuapp.com
📅 Feb 5, 2025
🎙️ Dr. Daisuke Kihara, Dr. Genki Terashi, Pranav Punuru
Topics: DiffModeler & DeepMainmast advanced cryo-EM protein modeling, DAQ tools, CryoREAD & more.
🔗 register: kiharalab-events-5ab900351568.herokuapp.com
Purdue students/staff/faculty: Join us for The Genomics Exchange, a weekly online series for bioinformatics & genomics enthusiasts! 🌟
🗓️ First session: Friday, Jan 17, 2025
⏰ Time: 11:00 AM EST
📍 Online via Teams
Register 👉: forms.office.com/r/BtHXQ1tEkQ
Let’s connect & exchange ideas! 🚀
🗓️ First session: Friday, Jan 17, 2025
⏰ Time: 11:00 AM EST
📍 Online via Teams
Register 👉: forms.office.com/r/BtHXQ1tEkQ
Let’s connect & exchange ideas! 🚀
Microsoft Forms
forms.office.com
January 17, 2025 at 12:18 AM
Purdue students/staff/faculty: Join us for The Genomics Exchange, a weekly online series for bioinformatics & genomics enthusiasts! 🌟
🗓️ First session: Friday, Jan 17, 2025
⏰ Time: 11:00 AM EST
📍 Online via Teams
Register 👉: forms.office.com/r/BtHXQ1tEkQ
Let’s connect & exchange ideas! 🚀
🗓️ First session: Friday, Jan 17, 2025
⏰ Time: 11:00 AM EST
📍 Online via Teams
Register 👉: forms.office.com/r/BtHXQ1tEkQ
Let’s connect & exchange ideas! 🚀
Reposted by RCAC Bioinformatics @ Purdue University
Published: Movi: A fast and cache-efficient full-text pangenome index www.cell.com/iscience/ful... 🧬🖥️🧪
December 12, 2024 at 10:16 AM
Published: Movi: A fast and cache-efficient full-text pangenome index www.cell.com/iscience/ful... 🧬🖥️🧪
Reposted by RCAC Bioinformatics @ Purdue University
What an amazing event! The team from Purdue and the Rosen Center for Advanced Computing had a packed week! We were thrilled to have had a chance to showcase all the amazing things happening on Purdue’s campus. Thanks to everyone who helped make this week special. #BOILERUP!
November 26, 2024 at 9:00 PM
What an amazing event! The team from Purdue and the Rosen Center for Advanced Computing had a packed week! We were thrilled to have had a chance to showcase all the amazing things happening on Purdue’s campus. Thanks to everyone who helped make this week special. #BOILERUP!
Reposted by RCAC Bioinformatics @ Purdue University
Congratulations to the students from Purdue Engineering on successfully presenting their capstone project! The group worked with RCAC to develop and implement an advanced, real-time predictive maintenance system using AI and IoT sensors for RCAC's #HPC infrastructure. #TheNextGiantLeap
December 9, 2024 at 7:09 PM
Congratulations to the students from Purdue Engineering on successfully presenting their capstone project! The group worked with RCAC to develop and implement an advanced, real-time predictive maintenance system using AI and IoT sensors for RCAC's #HPC infrastructure. #TheNextGiantLeap
🚨 Purdue Libraries is hiring! 🚨
Looking for an undergrad to join a Gamification project this Spring! 🕹️
💻 Skills: Unreal Engine, C++, Blueprints, GitHub
📍 Link to apply:
hcm-us10.hr.cloud.sap/sf/jobreq?jo...
Know someone who might be interested? Tag them! 🙌 #UnrealEngine #Gamedev #Purdue
Looking for an undergrad to join a Gamification project this Spring! 🕹️
💻 Skills: Unreal Engine, C++, Blueprints, GitHub
📍 Link to apply:
hcm-us10.hr.cloud.sap/sf/jobreq?jo...
Know someone who might be interested? Tag them! 🙌 #UnrealEngine #Gamedev #Purdue
December 9, 2024 at 10:24 PM
🚨 Purdue Libraries is hiring! 🚨
Looking for an undergrad to join a Gamification project this Spring! 🕹️
💻 Skills: Unreal Engine, C++, Blueprints, GitHub
📍 Link to apply:
hcm-us10.hr.cloud.sap/sf/jobreq?jo...
Know someone who might be interested? Tag them! 🙌 #UnrealEngine #Gamedev #Purdue
Looking for an undergrad to join a Gamification project this Spring! 🕹️
💻 Skills: Unreal Engine, C++, Blueprints, GitHub
📍 Link to apply:
hcm-us10.hr.cloud.sap/sf/jobreq?jo...
Know someone who might be interested? Tag them! 🙌 #UnrealEngine #Gamedev #Purdue
🚨 Summer '25 Paid Internships! Join Purdue’s Anvil Research Experience for Undergraduates for hands-on experience in AI, bioinformatics, & data centers. $680/week + housing. Apply now: purdue.ca1.qualtrics.com/jfe/form/SV_... 🌟
Anvil REU Applications
Application submission for the Purdue Anvil REU program.
purdue.ca1.qualtrics.com
December 4, 2024 at 1:46 PM
🚨 Summer '25 Paid Internships! Join Purdue’s Anvil Research Experience for Undergraduates for hands-on experience in AI, bioinformatics, & data centers. $680/week + housing. Apply now: purdue.ca1.qualtrics.com/jfe/form/SV_... 🌟
Reposted by RCAC Bioinformatics @ Purdue University
easySCF: A Tool for Enhancing Interoperability Between R and Python for Efficient Single-Cell Data Analysis https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btae710/7908354 🧬🖥️🧪 https://github.com/xleizi/easySCF
November 27, 2024 at 7:30 PM
easySCF: A Tool for Enhancing Interoperability Between R and Python for Efficient Single-Cell Data Analysis https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btae710/7908354 🧬🖥️🧪 https://github.com/xleizi/easySCF
Reposted by RCAC Bioinformatics @ Purdue University
AlphaFold predictions on whole genomes at a glance https://www.biorxiv.org/content/10.1101/2024.11.16.623929v2 🧬🖥️🧪
November 27, 2024 at 11:09 AM
AlphaFold predictions on whole genomes at a glance https://www.biorxiv.org/content/10.1101/2024.11.16.623929v2 🧬🖥️🧪
Reposted by RCAC Bioinformatics @ Purdue University
MMseqs2 Release 16 Highlights: GPU-accelerated search📄, ORF or new 6-frame translated search modes, contig taxonomy always keeps the longest ORF, bug fixes (reduced memory and higher sensitivity) and relicensed as MIT
📄 biorxiv.org/content/10.1...
💾 mmseqs.com and 🐍Bioconda 🖥️🧬🧶
📄 biorxiv.org/content/10.1...
💾 mmseqs.com and 🐍Bioconda 🖥️🧬🧶
November 27, 2024 at 9:08 AM
MMseqs2 Release 16 Highlights: GPU-accelerated search📄, ORF or new 6-frame translated search modes, contig taxonomy always keeps the longest ORF, bug fixes (reduced memory and higher sensitivity) and relicensed as MIT
📄 biorxiv.org/content/10.1...
💾 mmseqs.com and 🐍Bioconda 🖥️🧬🧶
📄 biorxiv.org/content/10.1...
💾 mmseqs.com and 🐍Bioconda 🖥️🧬🧶
Reposted by RCAC Bioinformatics @ Purdue University
Pylustrator offers an interactive interface to find the best way to present your data in a figure for publication. Added formatting and styling can be saved by automatically generated code. https://pylustrator.readthedocs.io/en/latest/ #python
November 26, 2024 at 11:00 PM
Pylustrator offers an interactive interface to find the best way to present your data in a figure for publication. Added formatting and styling can be saved by automatically generated code. https://pylustrator.readthedocs.io/en/latest/ #python
Reposted by RCAC Bioinformatics @ Purdue University
November 26, 2024 at 9:01 PM
Reposted by RCAC Bioinformatics @ Purdue University
annoy a bioinformatician with these simple phrases:
"Can't you just use Excel?"
"Isn't BLAST basically Google for DNA?"
"But did you annotate it?"
"Can't you just use Excel?"
"Isn't BLAST basically Google for DNA?"
"But did you annotate it?"
November 26, 2024 at 11:23 PM
annoy a bioinformatician with these simple phrases:
"Can't you just use Excel?"
"Isn't BLAST basically Google for DNA?"
"But did you annotate it?"
"Can't you just use Excel?"
"Isn't BLAST basically Google for DNA?"
"But did you annotate it?"
Reposted by RCAC Bioinformatics @ Purdue University
PanKB: An interactive microbial pangenome knowledgebase for research, biotechnological innovation, and knowledge mining https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae1042/7906839 🧬🖥️🧪
November 25, 2024 at 4:30 PM
PanKB: An interactive microbial pangenome knowledgebase for research, biotechnological innovation, and knowledge mining https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae1042/7906839 🧬🖥️🧪
Reposted by RCAC Bioinformatics @ Purdue University
Tech I'm thankful for blog.stephenturner.us/p/tech-im-th... #rstats 🧬🖥️🧪
Tech I'm thankful for (2024)
Data science and bioinformatics tech I'm thankful for in 2024: tidyverse, RStudio, Positron, Bluesky, blogs, Quarto, bioRxiv, LLMs for code, Ollama, Seqera Containers, StackOverflow, ...
blog.stephenturner.us
November 25, 2024 at 2:29 PM
Tech I'm thankful for blog.stephenturner.us/p/tech-im-th... #rstats 🧬🖥️🧪
Reposted by RCAC Bioinformatics @ Purdue University
"biology can remain hard longer than you can remain solvent"
AI-first biology: five years on https://press.airstreet.com/p/ai-first-biology-five-years-on
AI-first biology: five years on https://press.airstreet.com/p/ai-first-biology-five-years-on
November 21, 2024 at 7:30 PM
"biology can remain hard longer than you can remain solvent"
AI-first biology: five years on https://press.airstreet.com/p/ai-first-biology-five-years-on
AI-first biology: five years on https://press.airstreet.com/p/ai-first-biology-five-years-on
Reposted by RCAC Bioinformatics @ Purdue University
Blackbird: structural variant detection using synthetic and low-coverage long-reads https://www.biorxiv.org/content/10.1101/2024.11.17.624011v1 🧬🖥️🧪 https://github.com/1dayac/Blackbird
November 19, 2024 at 4:30 PM
Blackbird: structural variant detection using synthetic and low-coverage long-reads https://www.biorxiv.org/content/10.1101/2024.11.17.624011v1 🧬🖥️🧪 https://github.com/1dayac/Blackbird
Reposted by RCAC Bioinformatics @ Purdue University
Vcfexpress: flexible, rapid user-expressions to filter and format VCFs https://www.biorxiv.org/content/10.1101/2024.11.05.622129v1
Vcfexpress: flexible, rapid user-expressions to filter and format VCFs https://www.biorxiv.org/content/10.1101/2024.11.05.622129v1
Motivation: Variant Call Format (VCF) files are the standard output format for various software tool
www.biorxiv.org
November 6, 2024 at 2:46 PM
Vcfexpress: flexible, rapid user-expressions to filter and format VCFs https://www.biorxiv.org/content/10.1101/2024.11.05.622129v1
Reposted by RCAC Bioinformatics @ Purdue University
Highly accurate assembly polishing with google/DeepPolisher & PHAROAH https://www.biorxiv.org/content/10.1101/2024.09.17.613505v1?rss=1 🧬🖥️ https://github.com/google/deeppolisher and https://github.com/miramastoras/PHARAOH
October 31, 2024 at 3:30 PM
Highly accurate assembly polishing with google/DeepPolisher & PHAROAH https://www.biorxiv.org/content/10.1101/2024.09.17.613505v1?rss=1 🧬🖥️ https://github.com/google/deeppolisher and https://github.com/miramastoras/PHARAOH
Reposted by RCAC Bioinformatics @ Purdue University
The Wild West of spike-in normalization https://www.nature.com/articles/s41587-024-02377-y (read free: https://rdcu.be/dUiGQ) 🧬🖥️ Code: https://github.com/lapatel22/spike_in_correspondence_2024
October 31, 2024 at 8:00 PM
The Wild West of spike-in normalization https://www.nature.com/articles/s41587-024-02377-y (read free: https://rdcu.be/dUiGQ) 🧬🖥️ Code: https://github.com/lapatel22/spike_in_correspondence_2024
🚀 New Helixer tutorial for gene prediction! Predict genes in complex genomes like maize with 1 command—no repeatmasking, no extra data needed, all under 4 hrs! 🌽💻
Check it out: rcac-bioinformatics.readthedocs.io/en/latest/he...
#Bioinformatics #Genomics #RCAC
Check it out: rcac-bioinformatics.readthedocs.io/en/latest/he...
#Bioinformatics #Genomics #RCAC
Gene prediction using Helixer — RCAC bioinformatics tutorials
rcac-bioinformatics.readthedocs.io
October 31, 2024 at 2:42 PM
🚀 New Helixer tutorial for gene prediction! Predict genes in complex genomes like maize with 1 command—no repeatmasking, no extra data needed, all under 4 hrs! 🌽💻
Check it out: rcac-bioinformatics.readthedocs.io/en/latest/he...
#Bioinformatics #Genomics #RCAC
Check it out: rcac-bioinformatics.readthedocs.io/en/latest/he...
#Bioinformatics #Genomics #RCAC