acsoupir Goto Github PK

Some information for GitHub:

• 🔭 I’m currently working on ... growing my youtube channel teaching some bioinformatics procedures for analyzing sequencing data.
• 🌱 I’m currently learning ... integrating multi-omic approaches to identify causes for immunotherapy resistance.
• 👯 I’m looking to collaborate on ... data science projects for fun - have always had a soft sport for data analysis and predictive statistics.
• 🤔 I’m looking for help with ... learning Python more and scripting in bash, but am really interested in learning ground up coding for software development.
• 💬 Ask me about ... anything!
• ⚡ Fun fact: ... I like teaching as much as learning. Pursuing knowledge is fun but being able to pass on knowledge is incredible too.

• Creating a conda Environment for Pytorch and Cuda
• Spatial Transcriptomics - Part 4: Unsupervised InSituType
• Spatial Transcriptomics - Part 3: Normalization and Dimension Reduction
• Spatial Transcriptomics - Part 2: Exploring Seurat Object
• Spatial Transcriptomics Intro - Part 1: What Is Spatial Transcriptomics
• Bioinformatics - Identifying New RNA-seq Splice Junctions (Timestamps)
• Bioinformatics - Setting Up UseGalaxy Locally! (Timestamps)
• Bioinformatics - fastp FastQ Preprocessing Tool (Timestamps)
• Setting up Window Subsystem for Linux (WSL1)
• iTIME: interactive Tumor Immune MicroEnvironment! (#Hackathon2020)

Update (Faculty!) and Kidney Cancer Research Summit! Jul 10, 2024

SpaitalGE-Web - A User-Friendly Platform for Spatial Transcriptomics May 23, 2024

Spatial Transcriptomics - Part 4.1: Supervised Phenotyping with InSituType Feb 6, 2024

Testing Pytorch Auto-Encoder Code (Deep Learning) Feb 2, 2024

Spatial Transcriptomics - Part 7: Ligand-Receptor Spatial Autocorrelation Jan 30, 2024

• spatialTIME: R package for deriving spatial statistics from point patterns created with biological data
• scSpatialSIM: R package for simulating biologically informed point patterns (multiplex IF, spatial transcriptomics, etc)
• spatialGE: R package for analyzing spatial transcriptomics data informed with spatial context
• mxfda: R package for functional data analysis of spatial statistics (no more need to pick an radius!)
• curatedPCaData: R package of harmonized prostate cancer gene expression and copy number from almost 20 studies