test

README.md

@@ -6,8 +6,6 @@ permalink: /
 
 ![image](assets/profile.jpeg)
 
-Hi! This is my personal webpage. I use it mainly for writing blog posts and book reviews, and for sharing these with friends. I love writing about the topics that fascinate me - it's a great way to clarify your own thoughts and track their changes over time. It's also nice to have a personal space where you can just write from the heart and not take things too seriously. So I'm clarifying from the get go that this blog is a pet-project, distinct from my formal work. Most of these ideas were hashed out at the pub.
+Hi! This is my personal webpage. I use it mainly for writing blog posts and book reviews, and for sharing these with friends. I love writing about the topics that fascinate me - it's a great way to clarify your own thoughts and track their changes over time. It's also nice to have a personal space where you can just write from the heart and not take things too seriously. So I'm clarifying from the get go that this blog is a just a little project for my own enjoyment. Most of these ideas were hashed out at the pub.
 
-That said, I'm incredibly fortunate that my career aligns so well with my interests. I have a background in physics and machine learning, and currently work as a data scientist in a systems neuroscience lab. My interests are broad but somehow feel completely unified, ranging across philosophy of mind, Buddhism, neuroscience and AI. So expect to read about these and other topics in my blog.
-
-Any comments please don't hesitate to get in touch.
+That said, I'm incredibly fortunate that my career aligns so well with my interests. I have a background in physics and machine learning, and currently work as a data scientist in a systems neuroscience lab. My interests are broad but somehow feel completely unified, ranging across philosophy of mind, Buddhism, neuroscience and AI. So expect to read about these and other topics here.

_pages/cv.md

@@ -6,34 +6,32 @@ category: Jekyll
 layout: post
 ---
 
+## Overview
+I'm a neuro data scientist with a strong background in machine learning and physics. As a computational scientist I'm interested in working at the intersection of experiment and theory, and in interdisciplinary teams, with a passion for systems neuroscience, computational neuroscience, and machine learning.
+
 ## Experience
 
 ### MRC Laboratory of Molecular Biology (Cambridge, UK)
 - **Career Development Fellowship (Data Scientist)** (May 2023 -- Present)
 
-    My current major project is Antelope, which is a data management and processing platform for systems neuroscientists. It supports a number of experimental paradigms, including extracellular electrophysiology, calcium imaging, and behavioural data. It includes custom data preprocessing pipelines on a HPC, results storage in a MySQL database, and a web interface to easily manage this data, as well as a set of standard analysis functions to make the whole process from experiments to meaningful results as smooth as possible for experimenters.
+    My current major project is Antelope, which is a data management and processing platform for systems neuroscientists. This project provides a graphical user interface to a custom DataJoint pipeline. It supports a number of experimental paradigms, including extracellular electrophysiology, calcium imaging, and behavioural data. Antelope's database schema is designed to be as simple as possible: it tracks all raw data, metadata, and parameters to facilitate reproducible preprocessing, and provides processed data as easily queryable arrays to facilitate analysis. All preprocessing is optimised for the HPC as Nextflow pipelines. We also provide a python package with a comprehensive and extensible analysis suite that acts directly on the database.
+
+    In addition to this I also perform some database/server administration for the lab, and some coding assistance to lab members.
 
 ### April19 Discovery Inc (London, UK)
 - **Internship/MSc Project Collaboration** (May 2022 -- Oct. 2022)
 
     My MSc project looked at machine learning approaches to virtual screening. In particular, I used graph neural networks to predict protein-ligand interactions. Additionally with April19 I worked as part of a team using generative AI models applied to fragment-based lead discovery, searching for a drug that can inhibit the enzyme MurD ligase. In particular, I compared the performance of classical docking methods with state of the art deep learning based docking methods in identifying the allosteric site on MurD.
 
-## Teaching
-
-### Leading Education (Oxford, UK)
-- **Tutor** (Jan 2021 -- June 2021)
-
-    I taught A-level further maths and physics full time for half a year. This greatly improved my ability to communicate tricky mathematical ideas in a clear and concise fashion, a skill that will be very beneficial in my career. I hope to continue doing some teaching as a part of my work.
-
 ## Technical Skills
 
 - **Programming Languages:** Python, Bash, SQL
 - **ML/Data Science Tools:** NumPy, Pandas, PyTorch, Jax, Scikit-learn
 - **Data Visualisation:** Matplotlib, Seaborn, Plotly, Streamlit
-- **Containers:** Proficient in containerising software and deploying services in containers with Docker and Singularity
-- **Databases:** In charge of database administration for our lab's self-hosted MySQL and S3 databases
-- **High Performance Computing:** Experience writing complex pipelines with Slurm and Nextflow
-- **Other Technologies:** Linux, Git, Scientific writing, Technical documentation
+- **Containers:** Docker, Singularity
+- **Databases:** MySQL, S3
+- **High Performance Computing:** Slurm, Nextflow, Numba
+- **Other Technologies:** Linux, Git, LaTeX
 
 ## Education
 
@@ -46,3 +44,6 @@ layout: post
 - **Winchester College (Winchester, UK)**
   - Pre-U: Maths, D1; Further Maths, D1; Physics, D1; Philosophy and Theology, D2 (Sept. 2012 -- June 2017)
 
+## Miscellaneous
+
+- **Supervision** I co-supervised a master's student working on an image processing summer project. This project involved constructing a brain registration and cell detection pipeline for use on our lab's section image datasets.

_posts/blog.md → _posts/2024-01-21-insight-and-the-limits-of-language.md

@@ -1,9 +1,8 @@
 ---
-title: Blog
+title: Insight and the limits of language
 author: Rory Bedford
-date: 2023-08-28
+date: 2024-01-21
 category: Jekyll
 layout: post
 ---
-First blog post test.