Love, DNA & Code
open-menu closeme
Home
About
CV
Links icon
LinkedIn ResearchGate
github linkedin stackoverflow rss
  • Understanding Cellular Dynamics with RNA Velocity

    calendar Apr 28, 2025 · 7 min read · RNA velocity scVelo scanpy Pseudotime single cell RNAseq  ·
    Share on: twitter facebook linkedin copy
    Understanding Cellular Dynamics with RNA Velocity

    How to use scVelo to explore gene expression dynamics and differentiation


    Read More
  • Pseudotime Trajectories with Slingshot

    calendar Apr 24, 2025 · 12 min read · code Trajectory analysis Pseudotime single cell RNAseq Bioconductor  ·
    Share on: twitter facebook linkedin copy
    Pseudotime Trajectories with Slingshot

    Using Slingshot to calculate single cell trajectories


    Read More
  • Single Cell PCA Deep Dive

    calendar Apr 16, 2025 · 7 min read · single cell code Bioconductor  ·
    Share on: twitter facebook linkedin copy
    Single Cell PCA Deep Dive

    PCA is the first step of single cell data analysis, but how many PCs should you use?


    Read More
  • ENACT Visium HD cell segmentation and annotation

    calendar Apr 9, 2025 · 13 min read · Python Spatial Cell Segmentation Cell Annotation  ·
    Share on: twitter facebook linkedin copy
    ENACT Visium HD cell segmentation and annotation

    See ENACT, a complete end-to-end pipeline that includes Visium HD Cell Segmentation and Cell type annotation, in action.


    Read More
  • Visium HD cell segmentation with Bin2Cell

    calendar Mar 26, 2025 · 16 min read · Python Spatial Cell Segmentation  ·
    Share on: twitter facebook linkedin copy
    Visium HD cell segmentation with Bin2Cell

    Moving beyond nuclei segmentation, this post explores Bin2Cell for full cell segmentation in Visium HD spatial data.


    Read More
  • Using TensorFlow in 2025

    calendar Mar 22, 2025 · 2 min read · AI Deep Learning TensorFlow  ·
    Share on: twitter facebook linkedin copy
    Using TensorFlow in 2025

    Easiest way to install and use TensorFlow


    Read More
  • Visium HD segmentation

    calendar Mar 19, 2025 · 18 min read · Python Spatial Cell Segmentation  ·
    Share on: twitter facebook linkedin copy
    Visium HD segmentation

    Nuclei segmentation from Visium HD data


    Read More
  • Single cell Bioconductor's choice: SCE

    calendar Mar 13, 2025 · 19 min read · single cell Bioconductor RNAseq code  ·
    Share on: twitter facebook linkedin copy
    Single cell Bioconductor's choice: SCE

    Explore SingleCellExperiment in R! Master data structures & workflows to handle single-cell RNA-seq data effectively in your research projects.


    Read More
  • Single cell in R: Seurat

    calendar Mar 6, 2025 · 1614 min read · single cell Seurat RNAseq code  ·
    Share on: twitter facebook linkedin copy
    Single cell in R: Seurat

    Get started with Seurat, the Satija's lab R package for single-cell analysis. This beginner-friendly guide covers object's structure and essential functions.


    Read More
  • Single cell in Python: Scanpy and AnnData

    calendar Feb 27, 2025 · 8 min read · single cell code  ·
    Share on: twitter facebook linkedin copy
    Single cell in Python: Scanpy and AnnData

    Unlock the power of Scanpy! Discover how to efficiently store and manage single-cell RNA-seq data using AnnData in Python.


    Read More
    • ««
    • «
    • 1
    • 2
    • 3
    • »
    • »»

Alfonso Saera Vila

Welcome to 'Love, DNA & Code' my blog about new bioinformatics tools, single-cell & spatial applications, AI, and more.
Read More

Featured Posts

  • Visium HD cell segmentation with Bin2Cell
  • Single cell in Python: Scanpy and AnnData

Recent Posts

  • Building Your First Nextflow Pipeline: PART 4 - Polish your pipeline
  • Building Your First Nextflow Pipeline: PART 3 - Modularization & Configurable settings
  • Building Your First Nextflow Pipeline: PART 2 - Multiple Samples
  • Alignment or Pseudoalignment: Alevin-fry vs Cell Ranger comparison
  • Building Your First Nextflow Pipeline: PART 1 - One sample at a time
  • Pseudoalignment for single cell RNA-seq with alevin-fry
  • Pairwise Controlled Manifold Approximation (PaCMAP) for Single Cell
  • Single Cell Dimensional Reduction: Phate

Categories

BIOINFORMATICS 19 R 10 PYTHON 6 TECHNOLOGY 5 NEXTFLOW 4

Tags

CODE 16 SINGLE CELL 16 RNASEQ 9 BIOCONDUCTOR 5 PSEUDOALIGNMENT 4 CELL SEGMENTATION 3 DIMENSIONAL REDUCTION 3 PSEUDOTIME 3 PYTHON 3 SPATIAL 3 AI 2 RNA VELOCITY 2 TRAJECTORY ANALYSIS 2 CELL ANNOTATION 1
All Tags
AI2 BIOCONDUCTOR5 CELL ANNOTATION1 CELL SEGMENTATION3 CHATGPT1 CODE16 DEEP LEARNING1 DIMENSIONAL REDUCTION3 INDEX1 LLM1 PHATE1 PLOTS1 PSEUDOALIGNMENT4 PSEUDOTIME3 PYTHON3 RNA VELOCITY2 RNASEQ9 SCANPY1 SCVELO1 SEURAT1 SINGLE CELL16 SPATIAL3 T-SNE1 TENSORFLOW1 TRAJECTORY ANALYSIS2 UMAP1
[A~Z][0~9]
Copyright © 2008–2025, Alfonso Saera plus the clarity & Hugo Authors

Copyright  COPYRIGHT © 2008–2025, ALFONSO SAERA PLUS THE CLARITY & HUGO AUTHORS. All Rights Reserved

to-top