Cristian Groza, PhD
@cgroza.bsky.social
Computational Genomics.
https://scholar.google.com/citations?user=DzNAR8YAAAAJ&hl=fr
https://scholar.google.com/citations?user=DzNAR8YAAAAJ&hl=fr
Reposted by Cristian Groza, PhD
Inkscape plugin to rescale figures without distorting the text, and other useful features!
github.com/burghoff/Sci...
github.com/burghoff/Sci...
June 2, 2025 at 12:15 PM
Inkscape plugin to rescale figures without distorting the text, and other useful features!
github.com/burghoff/Sci...
github.com/burghoff/Sci...
Reposted by Cristian Groza, PhD
I’m happy to (finally!) share STRkit, a short tandem repeat genotyping tool for long reads that I've developed in @guilbourque.bsky.social's group over the past few years. Here we describe STRkit & demonstrate state-of-the-art performance in some benchmarks – long reads are great for resolving STRs!
STRkit: precise, read-level genotyping of short tandem repeats using long reads and single-nucleotide variation https://www.biorxiv.org/content/10.1101/2025.03.25.645269v1
March 29, 2025 at 1:01 PM
I’m happy to (finally!) share STRkit, a short tandem repeat genotyping tool for long reads that I've developed in @guilbourque.bsky.social's group over the past few years. Here we describe STRkit & demonstrate state-of-the-art performance in some benchmarks – long reads are great for resolving STRs!
Reposted by Cristian Groza, PhD
Check out the new STR tool from @davidlougheed.bsky.social in the group! Works with both PacBio and Nanopore!
April 1, 2025 at 7:15 AM
Check out the new STR tool from @davidlougheed.bsky.social in the group! Works with both PacBio and Nanopore!
Reposted by Cristian Groza, PhD
Pangenome graph augmentation from unassembled long reads https://www.biorxiv.org/content/10.1101/2025.02.07.637057v1
February 9, 2025 at 2:50 AM
Pangenome graph augmentation from unassembled long reads https://www.biorxiv.org/content/10.1101/2025.02.07.637057v1
Reposted by Cristian Groza, PhD
Pangenome graph augmentation from unassembled long reads https://www.biorxiv.org/content/10.1101/2025.02.07.637057v1 🧬🖥️🧪 https://github.com/ldenti/palss
February 9, 2025 at 12:25 PM
Pangenome graph augmentation from unassembled long reads https://www.biorxiv.org/content/10.1101/2025.02.07.637057v1 🧬🖥️🧪 https://github.com/ldenti/palss
Reposted by Cristian Groza, PhD
I don't know who needs to hear this, but if you want to look at all columns of a tibble (which has the somewhat annoying habit of only showing you as many columns as you have space for), just pipe it into print(width = Inf):
df |> print(width = Inf)
#rstats
df |> print(width = Inf)
#rstats
December 2, 2024 at 5:38 PM
I don't know who needs to hear this, but if you want to look at all columns of a tibble (which has the somewhat annoying habit of only showing you as many columns as you have space for), just pipe it into print(width = Inf):
df |> print(width = Inf)
#rstats
df |> print(width = Inf)
#rstats
Reposted by Cristian Groza, PhD
🖥️🧬 Pangenomics attacks rare disease! Check out our latest publication in Nature Communications, where we survey structural variation in the Genomics Answers for Kids cohort of disease genomes using minigraph.
rdcu.be/dwEJm
rdcu.be/dwEJm
rdcu.be
January 22, 2024 at 6:07 PM
🖥️🧬 Pangenomics attacks rare disease! Check out our latest publication in Nature Communications, where we survey structural variation in the Genomics Answers for Kids cohort of disease genomes using minigraph.
rdcu.be/dwEJm
rdcu.be/dwEJm
Reposted by Cristian Groza, PhD
I created a genomics+bioinformatics starter pack. If I left you off, *please* reply and I'll add you! go.bsky.app/B5YYBfq
Genomics+Bioinformatics Starter Pack 🧬🖥️
Join the conversation
go.bsky.app
October 22, 2024 at 12:34 PM
I created a genomics+bioinformatics starter pack. If I left you off, *please* reply and I'll add you! go.bsky.app/B5YYBfq
Reposted by Cristian Groza, PhD
Proud to be a part of this project led by @clementgoubert.bsky.social and @cgroza.bsky.social.
GraffiTE identifies polymorphic mobile elements (TEs) from genomic assemblies or long-read sequencing data, and genotypes these variants using short or long read sets.
go.nature.com/4hdZ5aV
GraffiTE identifies polymorphic mobile elements (TEs) from genomic assemblies or long-read sequencing data, and genotypes these variants using short or long read sets.
go.nature.com/4hdZ5aV
A unified framework to analyze transposable element insertion polymorphisms using graph genomes - Nature Communications
Transposable element (TE) activity affects genome structure. Here, authors present GraffiTE, a framework for analysing polymorphic TEs in long reads or assemblies. It combines state-of-the-art variant...
go.nature.com
October 20, 2024 at 3:52 AM
Proud to be a part of this project led by @clementgoubert.bsky.social and @cgroza.bsky.social.
GraffiTE identifies polymorphic mobile elements (TEs) from genomic assemblies or long-read sequencing data, and genotypes these variants using short or long read sets.
go.nature.com/4hdZ5aV
GraffiTE identifies polymorphic mobile elements (TEs) from genomic assemblies or long-read sequencing data, and genotypes these variants using short or long read sets.
go.nature.com/4hdZ5aV
Reposted by Cristian Groza, PhD
🎉 Our #GraffiTE paper is out!!! t.co/TmoSL3WQ1P If you are interested in #Transposon insertion polymorphism, this is for you!
https://www.nature.com/articles/s41467-024-53294-2
t.co
October 16, 2024 at 8:47 PM
🎉 Our #GraffiTE paper is out!!! t.co/TmoSL3WQ1P If you are interested in #Transposon insertion polymorphism, this is for you!
🖥️🧬 Pangenomics attacks rare disease! Check out our latest publication in Nature Communications, where we survey structural variation in the Genomics Answers for Kids cohort of disease genomes using minigraph.
rdcu.be/dwEJm
rdcu.be/dwEJm
rdcu.be
January 22, 2024 at 6:07 PM
🖥️🧬 Pangenomics attacks rare disease! Check out our latest publication in Nature Communications, where we survey structural variation in the Genomics Answers for Kids cohort of disease genomes using minigraph.
rdcu.be/dwEJm
rdcu.be/dwEJm
Reposted by Cristian Groza, PhD
Thread of some really great works out this week in the world of countering naive genetic thinking (e.g. hereditarianism, genetic determinism, scientific racism)
November 7, 2023 at 9:42 PM
Thread of some really great works out this week in the world of countering naive genetic thinking (e.g. hereditarianism, genetic determinism, scientific racism)
🖥️🧬Our recent preprint on GraffiTE, a transposable element genotyping pipeline: www.biorxiv.org/content/10.1...
Together with Clement Goubert, who is the source of all these great ideas and applications in the field of transposable elements.
Together with Clement Goubert, who is the source of all these great ideas and applications in the field of transposable elements.
GraffiTE: a Unified Framework to Analyze Transposable Element Insertion Polymorphisms using Genome-g...
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
September 22, 2023 at 8:18 PM
🖥️🧬Our recent preprint on GraffiTE, a transposable element genotyping pipeline: www.biorxiv.org/content/10.1...
Together with Clement Goubert, who is the source of all these great ideas and applications in the field of transposable elements.
Together with Clement Goubert, who is the source of all these great ideas and applications in the field of transposable elements.
🧬🖥️Who on here doing genomics?
September 22, 2023 at 5:00 PM
🧬🖥️Who on here doing genomics?