Training Approach in Evo and Evo2
<p>In the earlier posts of this series (<a href="https://homolog.us/blogs/bioinfo/2025/04/20/discussing-evo-evo2-papers/">here</a>, <a href="https://homolog.us/blogs/bioinfo/2025/04/22/evo-evo2-math-a...
Massively Parameterized Statistics
<p>In this article, I will argue that Multi Parameter Statistics, or even better, Massively Parameterized Statistics (MPS) better describes the application of AI models in biology and medicine. Also, ...
Biological Aspects of Evo and Evo2 - Semantic Mining
<p>In the last three posts of this series (<a href="https://homolog.us/blogs/bioinfo/2025/04/20/discussing-evo-evo2-papers/">here</a>, <a href="https://homolog.us/blogs/bioinfo/2025/04/22/evo-evo2-mat...
StripedHyena in Evo and Evo2
<p>In the first two posts of this series (<a href="https://homolog.us/blogs/bioinfo/2025/04/20/discussing-evo-evo2-papers/">here</a> and <a href="https://homolog.us/blogs/bioinfo/2025/04/22/evo-evo2-m...
Evo and Evo2 - Math and Algorithm
<p>In the <a href="https://homolog.us/blogs/bioinfo/2025/04/20/discussing-evo-evo2-papers/">first post of this series</a>, we covered the basic technical terms of the evo and evo2 papers. We also ment...
Short RNA-seq read alignment with minimap2
<p><strong><em>TL;DR:</em></strong> <em>the new preset <code class="language-plaintext highlighter-rouge">splice:sr</code> in minimap2 can align short RNA-seq reads. It is similar to STAR in resource ...
Dive into pre-transcriptional regulation analysis
<p>Hello. How are you? I'm a little sad. These days I had an idea of applying ML models in bioinformatic field. The idea is good but moving from idea to practical application is always complex and oft...
Mitch gets upgraded - now with gene set networks
<p>Interpreting pathway enrichment analysis results is a big challenge. There may be hundreds of statistically significant pathways from an analysis and getting to a shortlist of key mechanisms to fol...
Beyond Data Analysis: The Bioinformatician’s Role in Planning RNAseq Experiments
<p>Hi, how are you? We're approaching spring and brighter days, and that generally puts me in a good mood. At work, I'm enjoying learning new things and improving as a bioinformatician; the more days ...
Installing pip based tools for bioinformatics
Loads of bioinformatics and data science tools are available through the `pip` package manager/installer. In days gone by, it was possible to type somethinig like pip install mytool --user to get a to...