The Wayback Machine - https://web.archive.org/web/20220816003517/https://github.com/kapsakcj
Skip to content
Avatar
🏠
Working from home
🏠
Working from home
74 followers · 195 following

Achievements

Achievement: Pair ExtraordinaireAchievement: YOLOAchievement: QuickdrawAchievement: StarstruckAchievement: Pull Sharkx2Achievement: Arctic Code Vault Contributor
BetaSend feedback

Achievements

Achievement: Pair ExtraordinaireAchievement: YOLOAchievement: QuickdrawAchievement: StarstruckAchievement: Pull Sharkx2Achievement: Arctic Code Vault Contributor
BetaSend feedback
Block or Report

Block or report kapsakcj

Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse
kapsakcj/README.md

Hi there 👋

Hi! I'm Curtis. I'm a bioinformatician working with Theiagen Genomics. I'm a fan of microbial genomics 🦠, reproducible bioinformatics methods ♻️, and DNA sequencing 🧬!

  • 🌱 I’m currently learning Python, WDL, Nextflow, and Continuous Integration techniques
  • 👯 I’m looking to collaborate on developing dockerfiles to make installation and usage of bioinformatics tools easier! See here
  • 💬 Ask me about - Bacterial genomes, plasmids, software containers
  • 📫 How to reach me - Twitter, LinkedIn, email kapsakcj (at) gmail (dot) com,
  • 😄 Pronouns - He/Him

Pinned

  1. StaPH-B/docker-builds Public

    📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

    Dockerfile 108 50

  2. theiagen/public_health_viral_genomics Public

    Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially the SARS-CoV-2 virus

    wdl 27 12

  3. theiagen/public_health_bacterial_genomics Public

    wdl 15 10

  4. win10-linux-conda-how-to Public

    A tutorial on how to set up a Linux environment on a computer running Windows 10. Followed by how to install and use (bio)conda.

    25 7

  5. nanoporeWorkflow Public

    🧬 Shell scripts for working with bacterial isolate Nanopore sequence data on CDC servers

    Shell 6 3

  6. StaPH-B/CDPHE Public

    Various pipelines and scripts used by the CO state public health lab

    Shell 2 4

550 contributions in the last year

Aug Sep Oct Nov Dec Jan Feb Mar Apr May Jun Jul Aug Mon Wed Fri
Learn how we count contributions
Less More
NEW! View your contributions in 3D, VR and IRL!

Contribution activity

August 2022

Created 20 commits in 3 repositories

Created a pull request in StaPH-B/docker-builds that received 9 comments

adds resfinder 4.1.11

This PR adds a dockerfile for a tool not yet added to this repo: Dockerfile for ResFinder 4.1.11 Resfinder database & PointFinder database included

+171 −0 • 9 comments
Opened 7 other pull requests in 1 repository
Reviewed 7 pull requests in 2 repositories
StaPH-B/docker-builds 6 pull requests
theiagen/public_health_bacterial_genomics 1 pull request

Created an issue in StaPH-B/docker-builds that received 1 comment

[Request An Update]: amrfinderplus 3.10.36

What container needs an update? https://github.com/ncbi/amr/releases small bugfix included in this release. Dockerfile will likely be nearly identi…

1 comment