Wiep van der Toorn
@wiepp
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PhD student Data Science and Bioinformatics at the RKI in Berlin, Germany.
Berlin
Joined October 2010
5/6 ⚡️ Processing speed benchmark: WDX4: 2.2 min/100k reads (on 8 CPU cores, decreases linearly with number of cores)
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4/6 💪 New retry functionality allows recovery of failed reads using an alternative detection workflow - helping you maximize your sequencing yield.
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3/6 🚀 Major improvements in this release: .- New CNN-based adapter detection workflow .- Improved adapter detection for short reads .- Streamlined file processing.
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2/6 📊 Performance highlights for RNA004: .- Calibrated performance for difference target accuracy modes (95-99.9%) at high yields .- Extremely low cross-talk between barcodes .- 10 fold runtime improvement compared to RNA002.
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1/6 🎉 Excited to announce WarpDemuX v0.4.4 with RNA004 support! Our (@PatrickBohnPB ) WDX4 model achieves 99.5% target accuracy with 95% yield on the latest RNA sequencing kit from @nanopore. Release notes at:
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RT @AdrienLeger2: It's Christmas in advance with a very special @nanopore #opendata release ! 🎅.Today we are releasing our 5mC 5hmC and 6mA….
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RT @GDiensthuber: VERY excited to share SeqTagger with the world! If you want to learn more about our super-fast and accurate demultiplexin….
biorxiv.org
Nanopore direct RNA sequencing (DRS) enables direct measurement of RNA molecules, including their native RNA modifications, without prior conversion to cDNA. However, commercial methods for molecular...
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For those interested, WarpDemuX and its models, including one trained on DeePlexiCon barcodes, are available for use. Dive into our preprint for all the details. 🚀🔬.
biorxiv.org
Nanopore direct RNA sequencing (dRNA-seq) enables unique insights into (epi-)transcriptomics. However, applications are currently limited by the lack of accurate and cost-effective sample multiplex...
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Extremely excited to share that our Nanopore direct RNA multiplexing solution--WarpDemuX, is here! . WarpDemuX is both fast and highly accurate. Check out @PatrickBohnPB's awesome thread on our work! 👇.
Finally, meet WarpDemuX! . Our (@wiepp) solution for dRNA multiplexing - so fast it runs on any laptop, and so accurate that we could demux even super low abundance samples with high specificity! . And imho the coolest thing? We've also run dRNA live barcode balancing with it 👀.
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RT @INSPI_ECUADOR: #INSPIEsVigilanciaGenómica .Técnicos e Investigadores del INSPI @Salud_Ec @AgrocalidadEC y @Ambiente_Ec fortalecen sus c….
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RT @INSPI_ECUADOR: #INSPIVigilanciaGenómica.INSPI @ABG_galapagos @AgrocalidadEC y @Ambiente_Ec participan en taller “Secuenciación de Nueva….
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RT @martinhoelzer: Overall, C is the least accurate nucleotide, but sequence contexts matter greatly! The most accurate 3-mer context “GCA”….
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RT @martinhoelzer: Looking forward to the direct RNA update tomorrow #nanoporeconf! Meanwhile, we also updated our preprint on dRNA-seq sys….
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RT @martinhoelzer: Pleased to be able to contribute here; study led by Max v Kleist (@rki_de @FU_Berlin) & Redmond Smyth lab (@Helmholtz_HI….
biorxiv.org
Direct RNA sequencing (dRNA-seq) on the Oxford Nanopore Technologies (ONT) platforms can produce reads covering up to full-length gene transcripts while containing decipherable information about RNA...
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