ricomnl / apricot-julia

Hi there 👋

Currently @ retro.bio. I'm interested in gene regulatory networks, bioelectricity and longevity.

Scientific Software

• nf-encyclopedia - A NextFlow pipeline for chromatogram library DIA proteomics workflows

Contributions:

• scvi-tools
• redun
• kb_python
• During the bitsinbio hackathon in March '22, I contributed to graphein
• EncyclopeDIA - a library search engine comprised of several algorithms for data independent acquisition (DIA) mass spectrometry data analysis: encyclopedia
• Gopher - Gene ontology enrichment analysis using protein expression: gopher

Some other stuff I've worked on:

• Semantic Podcast Search (using Lex Fridman's AI podcast)
• Accompanying code to my blog post Bioinformatics pipeline example from the bottom up: bioinformatics-pipeline-tutorial
• Instacart2vec: My bachelor thesis on using word2vec for online grocery recommendations

While participating in the How To Grow (Almost) Anything course on Synthetic Bio:

• Opentrons protocol to draw 8x8 digits in 96-well plates: opentron_digits
• Protein structure analysis of KLF4 using nglview: protein_structure_analysis | online docs

Fun projects

• Tensor Puzzle exercises put together by @srush_nlp
• WIP: Nand2Tetris

Twitter: @ricomnl

Website: https://ricomnl.com