Instances
In computer science, programmers refer to instances as a new context based on an existing model. You can “spin up” or launch an instance of program/system you’re working on, developing it in a controlled environment. When ready, you can “push” your instance to the world. Others may “pull” down your instance, improve on it, and merge it with your work. Though the terminology may be new to those outside of the computer science world, the overall concept of developing instances is nothing new.
I have personally never liked the word “blog”. I don’t like it’s phonetic sound. I also don’t like how it lacks descriptiveness, or simply, character. So I’ve decided to call my posts as “instances”. Some serve as important developments in my medical world. Others may highlight literal programming or technology ideas I am tinkering with. Some may seem to have nothing to do with anything. Collectively, these instances give you an idea of what I’m tinkering with today.
Next-gen transcriptomics on Red Hat Enterprise Linux 9 (RHEL)
Note: this post has been updated to reflect upgrades to CUDA 12.6, RHEL 9.4, and select packages. Upgrade RHEL 9 to 9.4 EPEL Extra packages …
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Get Datalad Paths
Datalad is a tool that wraps around git and git-annex. It allows (and recommends, see YODA) nesting “subdatasets” inside of parent “datasets”. The root level …
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Securely updating WordPress Core, Plugins, and Themes
Securely update your WordPress by using Linux file permissions
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STAR Methods: Key Resources
A living document with the goal of improving research reproducibility. Detailed listing of the key resources required, adapted from Cell Press STAR Methods
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Building a bioinformatics lab from scratch, in Debian 12
Create a workbench to analyze next-generation -omics (e.g. single-cell RNA sequencing) using Debian, Python, R, CUDA for NVidia GPUs, Docker, and VSCode.
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Using Quarto for documentation and publication
Quarto describes itself as “an open-source scientific and technical publishing system”. With the work that I have been doing in the lab, I’ve been hoping …
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REDCap Trick 1: Jump directly to a particular record with this bookmarklet
A single line of code can help you jump directly to a record in REDCap. This helps you save multiple clicks just to get to where you need to be.
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PGP Encryption: Add My PGP Public Keys
Pretty Good Privacy (PGP) is one of the most widely used encryption methods used in the world. It was created by Philip Zimmermann in 1991 …
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Finding files with the command line
Recursively list files and sort by date modified In my research project, I often have to quickly navigate through a large directory of study subjects …
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Cutting the Cord – A 2 Year Retrospective Using Plex
How our family saved $2,577, with $1,731 ‘net profit’ in our pockets We all know the dance – having to deal with our cable company …
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COVID-19 Dashboard
This dashboard is sourced and automatically updated from Dr. Pranav Mishra’s Github at https://github.com/pranavmishra90/COVID-19.
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A deductive approach to modeling the spread of COVID-19
Abstract Severe acute respiratory syndrome coronavirus 2 (SARS-COV-2), previously known as 2019-nCoV, is responsible for the atypical pneumonia pandemic designated as Coronavirus Disease 2019 (COVID-19). …
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Script: DVR-Retention
Our family is big on watching NBC Nightly News with Lester Holt, each night. My Plex server records this news program, each day/week. This script …
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Script: YouTube-to-Plex
I have two scripts which help me import YouTube videos into my Plex server. This script allows me to download individual YouTube videos to my …
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Rural Medicine Camp
Camps organized by the Dept of Community Medicine serve as primary care for village populations whichotherwise would not travel to healthcare centers. We screen patients …
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Script: YouTube-Channels-to-Plex
I have two scripts which help me import YouTube videos into my Plex server. This script allows me to download entire YouTube channels to my …
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WashU Admissions – Alumni Interviews
Undergraduate Admissions at Washington University in St. Louis I have interviewed prospective undergraduate students for Washington University in St. Louis. I have interviewed in-person candidates …
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Rural Ophthalmology Camp
Camps organized by the Dept of Ophthalmology serve to screen village populations which otherwise would nottravel to healthcare centers. The most significant role of a …
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Cutting Edge Surgical Society
Cutting Edge is the surgical society at Kasturba Medical College, Manipal. It is a student led organization that focuses on providing an early, enriched exposure to surgery.
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Vice President of Administration – KMC Student Council
Elected to represent 1,000 medical students on issues primarily concerning academics, room & boarding, student safety, and overall medical school experience. Advocated and negotiated for the student body in meetings with student interest groups, faculty heads, college/university administration, and local public officials. Compiled student data and interviewed for national / international academic accreditation agencies.
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