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An attempt at speeding up TSNE using Apple MLX
I’m often encountering situations where I want to do a quick 2D visualization of some data.
Apr 1
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Valentine Svensson
March 2025
SCVI — Inference-based optional integration
The batch-integrating SCVI model is a conditional variational autoencoder (cVAE, Sohn et al.
Mar 28
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Valentine Svensson
SCVI — Integrating or not?
In modern single cell analysis workflows you fit a model to your data that allow you to ask questions about the data.
Mar 18
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Valentine Svensson
Cloud GPUs for SCVI
When I moved last year I decided to get rid of my Windows PC.
Mar 6
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Valentine Svensson
The strength of a hand
In this video I model the scaling strengths of the different poker hands in Balatro.
Mar 3
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Valentine Svensson
August 2024
Valentine Svensson
What do you mean ‘heterogeneity’?
Aug 4, 2024
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Valentine Svensson
February 2024
Immune response enrichment analysis in Python
In a recent paper, Cui and colleagues define a ‘dictionary’ of immune responses to cytokine stimulation (Cui et al.
Feb 12, 2024
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Valentine Svensson
Single-cell metadata as language
Single-cell RNA-seq data is molecule counts of transcripts from different genes within different cells.
Feb 4, 2024
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Valentine Svensson
January 2024
Organizing scRNA-seq data with LaminDB
Occasionally, when I’m curious about something scRNA-seq related, I analyze some data.
Jan 31, 2024
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Valentine Svensson
December 2023
Detecting scRNA-seq study duplicates using sentence embeddings
I have been maintaining a spreadsheet of publications that generated single-cell transcriptomics data for about five years.
Dec 1, 2023
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Valentine Svensson
October 2023
Interpreting scVI - adjusted expression levels
With single cell RNA-seq measurements, you observe molecule counts spread over genes of origin from a sample of the transcripts in individual cells.
Oct 5, 2023
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Valentine Svensson
September 2023
Lyft priority pickup waiting times
When I moved to California at the beginning of the year I didn’t have a drivers’ license.
Sep 21, 2023
•
Valentine Svensson
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