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2024
- Feb 11, 2024 Immune response enrichment analysis in Python Feb 11, 2024
- Feb 4, 2024 Single-cell metadata as language Feb 4, 2024
- Jan 30, 2024 Organizing scRNA-seq data with LaminDB Jan 30, 2024
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2023
- Nov 30, 2023 Detecting scRNA-seq study duplicates using sentence embeddings Nov 30, 2023
- Oct 4, 2023 Interpreting scVI - adjusted expression levels Oct 4, 2023
- Sep 20, 2023 Lyft priority pickup waiting times Sep 20, 2023
- Sep 5, 2023 Training scVI — Summarizing posterior predictive distributions Sep 5, 2023
- Aug 13, 2023 Training scVI - Posterior predictive distributions over epochs Aug 13, 2023
- Jun 9, 2023 Tutorial - Label transfer with scVI and scHPL Jun 9, 2023
- May 24, 2023 Cells in the center of scVI latent space May 24, 2023
- Mar 1, 2023 Keyboard switches on a Squarp Pyramid MIDI sequencer Mar 1, 2023
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2022
- Nov 21, 2022 Tracking grocery expenses Nov 21, 2022
- Sep 27, 2022 Making coffee Sep 27, 2022
- Apr 20, 2022 Policy under spatial constraints Apr 20, 2022
- Mar 8, 2022 VAE's are explainable - differential expression in scVI Mar 8, 2022
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2020
- Dec 26, 2020 Disappointing variational inference for GLMM's Dec 26, 2020
- Nov 27, 2020 Cell type abundance analysis in scRNA-seq Nov 27, 2020
- Sep 17, 2020 A trip through the layers of scVI Sep 17, 2020
- Jul 3, 2020 Microphones for Zoom meetings Jul 3, 2020
- May 10, 2020 Comparing Slide-seq and Slide-seqV2 counts May 10, 2020
- Apr 6, 2020 Converting images of line graphs to data Apr 6, 2020
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2019
- Mar 14, 2019 “Get a good pair of walking shoes” - A statistical photography analysis Mar 14, 2019
- Feb 14, 2019 Handling confounded samples for differential expression in scRNA-seq experiments Feb 14, 2019
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2018
- Oct 25, 2018 Unscaling scaled counts in scRNA-seq data Oct 25, 2018
- Oct 24, 2018 Resolving immune cell fates in malaria Oct 24, 2018
- Oct 4, 2018 Integrating scRNA-seq and spatial STARmap data from mouse frontal cortex with scVI Oct 4, 2018
- Sep 25, 2018 Identify tissue structure with Automatic Expression Histology Sep 25, 2018
- Apr 20, 2018 Count based autoencoders and the future for scRNA-seq analysis Apr 20, 2018
- Apr 5, 2018 Illustrating spatially variable genes with a 1-dimensional zebrafish Apr 5, 2018
- Mar 5, 2018 Actionable scRNA-seq clusters Mar 5, 2018
- Feb 26, 2018 The effect of Poisson zeros on OLS regression results Feb 26, 2018
- Jan 30, 2018 Count depth variation makes Poisson scRNA-seq data Negative Binomial Jan 30, 2018
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2017
- Dec 6, 2017 Low mapping rate 6 - Converting sorted BAM to FASTQ Dec 6, 2017
- Nov 16, 2017 Droplet scRNA-seq is not zero inflated Nov 16, 2017
- Oct 16, 2017 Variance stabilizing scRNA-seq counts Oct 16, 2017
- Sep 18, 2017 Low mapping rate 5 - Human DNA contamination Sep 18, 2017
- Sep 15, 2017 Low mapping rate 4 - Bacterial contamination in reagents Sep 15, 2017
- Sep 8, 2017 Low mapping rate 3 - TSO concatemers Sep 8, 2017
- Sep 5, 2017 Low mapping rate 2 - Ribosomal RNA Sep 5, 2017
- Sep 1, 2017 Low mapping rate 1 - Unsorted FASTQ pairs Sep 1, 2017
- Jul 4, 2017 Negative Binomial Factor Analysis by SGD Jul 4, 2017
- Jun 20, 2017 Simple and interpretable supervised machine learning of scRNA-seq cell types Jun 20, 2017
- Jun 18, 2017 Approximate PCA by mini-batch SGD using TensorFlow Jun 18, 2017
- Jun 11, 2017 How to read PCA plots Jun 11, 2017
- May 27, 2017 Learning multiple single cell trajectories with OMGP May 27, 2017
- May 20, 2017 Reverse Differential Expression for cell type markers May 20, 2017
- May 5, 2017 Mapping a malaria infection response by GPLVM May 5, 2017
- Apr 13, 2017 ZINB-WaVE in Stan for scRNA-seq analysis Apr 13, 2017
- Mar 27, 2017 Explaining variance by technical factors in scRNA-seq data using ARD-MLR in Stan Mar 27, 2017
- Feb 5, 2017 Coffee Concentration and Color Feb 5, 2017
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2016
- Dec 28, 2016 PCA with batch effects in Stan Dec 28, 2016
- Oct 2, 2016 The first steps in RNA-seq expression analysis (single-cell and other) Oct 2, 2016
- Sep 6, 2016 Swedish School Fires by Gaussian Process Regression Sep 6, 2016
- Jul 11, 2016 The variability of a spoonful of coffee Jul 11, 2016
- Jul 5, 2016 Writing and Citing with Google Docs and Paperpile Jul 5, 2016
- Jun 17, 2016 Streaming RNA-seq data from ENA Jun 17, 2016
- Jun 8, 2016 K-means in TensorFlow Jun 8, 2016
- Apr 29, 2016 Some intuition about the GPLVM Apr 29, 2016
- Feb 24, 2016 Observations needed to estimate standard deviation Feb 24, 2016
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2015
- Nov 29, 2015 Timecourse analysis with Sleuth Nov 29, 2015
- Aug 19, 2015 Let me guess where you’re from Aug 19, 2015
- May 6, 2015 Comparing unpublished RNA-Seq gene expression quantifiers May 6, 2015
- May 5, 2015 Modelling Measles in 20th Century US May 5, 2015
- Apr 26, 2015 Improper applications of Principal Component Analysis on multimodal data Apr 26, 2015
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2014
- Sep 16, 2014 High contrast stacked distribution plots Sep 16, 2014
- Jun 28, 2014 Extract Cluster Elements by Color in Python Dendrograms Jun 28, 2014
- Apr 13, 2014 Riemannian Newton iteration for Rayleigh quotients on the sphere Apr 13, 2014
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2013
- Nov 8, 2013 Gene Discovery Rate in RNA-seq data Nov 8, 2013
- Oct 21, 2013 More interactive Python plotting with Clojure and Quil Oct 21, 2013
- Jul 24, 2013 Non-standard Python on UPPMAX Jul 24, 2013
- Jul 8, 2013 Visualizing overlapping intervals Jul 8, 2013
- Jun 26, 2013 Single Linkage Clustering Heuristic Jun 26, 2013
- Apr 16, 2013 Teaching Python at SciLifeLab Apr 16, 2013
- Mar 27, 2013 Making nicer looking pie charts with matplotlib Mar 27, 2013
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2012
- Nov 29, 2012 Loadings with scikit-learn PCA Nov 29, 2012
- Nov 8, 2012 Splitting a file Nov 8, 2012
- Nov 7, 2012 Solution path for 'Towers of Hanoi' Nov 7, 2012