We provide the scientific community with an ecosystem of tools and resources, #omnideconv, that strongly simplifies the application, benchmarking, and optimization of deconvolution methods: omnideconv.org
5/
5/
November 12, 2024 at 1:41 PM
We provide the scientific community with an ecosystem of tools and resources, #omnideconv, that strongly simplifies the application, benchmarking, and optimization of deconvolution methods: omnideconv.org
5/
5/
🧬 🖥️ If you are looking for more tools, resources, and insights about next-generation #deconvolution, have a look at our #omnideconv website: omnideconv.org
November 12, 2024 at 2:21 PM
🧬 🖥️ If you are looking for more tools, resources, and insights about next-generation #deconvolution, have a look at our #omnideconv website: omnideconv.org
Benchmarking second-generation methods for cell-type deconvolution of transcriptomic data https://www.biorxiv.org/content/10.1101/2024.06.10.598226v1 🧬🖥️🧪
omnideconv #Rstats pkg https://github.com/omnideconv/deconvBench
Nextflow pipeline https://github.com/omnideconv/deconvBench
omnideconv #Rstats pkg https://github.com/omnideconv/deconvBench
Nextflow pipeline https://github.com/omnideconv/deconvBench
December 12, 2024 at 7:30 PM
Benchmarking second-generation methods for cell-type deconvolution of transcriptomic data https://www.biorxiv.org/content/10.1101/2024.06.10.598226v1 🧬🖥️🧪
omnideconv #Rstats pkg https://github.com/omnideconv/deconvBench
Nextflow pipeline https://github.com/omnideconv/deconvBench
omnideconv #Rstats pkg https://github.com/omnideconv/deconvBench
Nextflow pipeline https://github.com/omnideconv/deconvBench
Great collaboration with @itisalist.bsky.social ✨
We hope our study and set of tools and resources can be helpful to the scientific community 💫
📝 preprint: doi.org/10.1101/2024...
🛠️ omnideconv ecosystem: omnideconv.org
Please repost and help us spread the word!
6/6
We hope our study and set of tools and resources can be helpful to the scientific community 💫
📝 preprint: doi.org/10.1101/2024...
🛠️ omnideconv ecosystem: omnideconv.org
Please repost and help us spread the word!
6/6
Benchmarking second-generation methods for cell-type deconvolution of transcriptomic data
In silico cell-type deconvolution from bulk transcriptomics data is a powerful technique to gain insights into the cellular composition of complex tissues. While first-generation methods used precompu...
doi.org
November 12, 2024 at 1:41 PM
Great collaboration with @itisalist.bsky.social ✨
We hope our study and set of tools and resources can be helpful to the scientific community 💫
📝 preprint: doi.org/10.1101/2024...
🛠️ omnideconv ecosystem: omnideconv.org
Please repost and help us spread the word!
6/6
We hope our study and set of tools and resources can be helpful to the scientific community 💫
📝 preprint: doi.org/10.1101/2024...
🛠️ omnideconv ecosystem: omnideconv.org
Please repost and help us spread the word!
6/6
omnideconv is an ecosystem of user-friendly tools and resources for cell-type deconvolution. (bulk RNAseq, spatial data)
omnideconv.org/
omnideconv.org/
September 10, 2025 at 2:15 PM
omnideconv is an ecosystem of user-friendly tools and resources for cell-type deconvolution. (bulk RNAseq, spatial data)
omnideconv.org/
omnideconv.org/
🧬 🖥️ Need help for investigating tissue complexity from #spatial #transcriptomics data? Try out our #spacedeconv R package!
💻 Code: github.com/omnideconv/s...
📝 Preprint: www.researchsquare.com/article/rs-5...
💻 Code: github.com/omnideconv/s...
📝 Preprint: www.researchsquare.com/article/rs-5...
November 12, 2024 at 1:34 PM
🧬 🖥️ Need help for investigating tissue complexity from #spatial #transcriptomics data? Try out our #spacedeconv R package!
💻 Code: github.com/omnideconv/s...
📝 Preprint: www.researchsquare.com/article/rs-5...
💻 Code: github.com/omnideconv/s...
📝 Preprint: www.researchsquare.com/article/rs-5...
omnideconv: a unifying framework for using and benchmarking single-cell-informed deconvolution of bulk RNA-seq data [updated]
Single-cell deconv tools: strengths, limits, data needs (real/sim).
Single-cell deconv tools: strengths, limits, data needs (real/sim).
July 1, 2025 at 9:56 PM
omnideconv: a unifying framework for using and benchmarking single-cell-informed deconvolution of bulk RNA-seq data [updated]
Single-cell deconv tools: strengths, limits, data needs (real/sim).
Single-cell deconv tools: strengths, limits, data needs (real/sim).
🧬🖥️🧪 Interested in single-cell-informed cell-type #deconvolution? Have a look at our enhanced benchmarking study and #omnideconv ecosystem!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
July 15, 2025 at 2:25 PM
🧬🖥️🧪 Interested in single-cell-informed cell-type #deconvolution? Have a look at our enhanced benchmarking study and #omnideconv ecosystem!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Fantastic set of tools for cell type deconvolution: omnideconv
They look really well put together, with validation data, interfaces to numerous methods, in a nice set of R packages!
I quoted-skeeted the hex stickers, I have to appreciate those too. 👌
They look really well put together, with validation data, interfaces to numerous methods, in a nice set of R packages!
I quoted-skeeted the hex stickers, I have to appreciate those too. 👌
We provide the scientific community with an ecosystem of tools and resources, #omnideconv, that strongly simplifies the application, benchmarking, and optimization of deconvolution methods: omnideconv.org
5/
5/
December 12, 2024 at 4:11 AM
Fantastic set of tools for cell type deconvolution: omnideconv
They look really well put together, with validation data, interfaces to numerous methods, in a nice set of R packages!
I quoted-skeeted the hex stickers, I have to appreciate those too. 👌
They look really well put together, with validation data, interfaces to numerous methods, in a nice set of R packages!
I quoted-skeeted the hex stickers, I have to appreciate those too. 👌
Had great fun attending the #gcb2024 in Bielefeld. Our group had the honor of contributing 2 talks (Judith Bernett on guiding questions to avoid data leakage and Johannes Kersting on GRN inference with DysRegNet. A surprise at the end: Alex Dietrich won the poster prize with the project omnideconv!
October 2, 2024 at 5:39 PM
Had great fun attending the #gcb2024 in Bielefeld. Our group had the honor of contributing 2 talks (Judith Bernett on guiding questions to avoid data leakage and Johannes Kersting on GRN inference with DysRegNet. A surprise at the end: Alex Dietrich won the poster prize with the project omnideconv!
We love sharing tools! Check out this "ecosystem of tools and resources, omnideconv, simplifying the application, benchmarking, and optimization of deconvolution methods" of second-gen methods for cell-type deconvolution of transcriptomic data.
Great collaboration with @itisalist.bsky.social ✨
We hope our study and set of tools and resources can be helpful to the scientific community 💫
📝 preprint: doi.org/10.1101/2024...
🛠️ omnideconv ecosystem: omnideconv.org
Please repost and help us spread the word!
6/6
We hope our study and set of tools and resources can be helpful to the scientific community 💫
📝 preprint: doi.org/10.1101/2024...
🛠️ omnideconv ecosystem: omnideconv.org
Please repost and help us spread the word!
6/6
Benchmarking second-generation methods for cell-type deconvolution of transcriptomic data
In silico cell-type deconvolution from bulk transcriptomics data is a powerful technique to gain insights into the cellular composition of complex tissues. While first-generation methods used precompu...
doi.org
December 11, 2024 at 7:30 PM
We love sharing tools! Check out this "ecosystem of tools and resources, omnideconv, simplifying the application, benchmarking, and optimization of deconvolution methods" of second-gen methods for cell-type deconvolution of transcriptomic data.