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@Arcadia-Science

Arcadia Science

README.md

Welcome to @Arcadia-Science!

At Arcadia, one of our central tenets is that our science should be maximally useful. Computational tasks are embedded in all aspects of our scientific inquiry, so we need our computing strategies to be maximally useful too. What does this mean? In addition to aligning with scientific priorities across Arcadia, we believe that useful computing is ✨ innovative, 👩‍💻usable, 🔁 reproducible. Read more about our efforts.

Popular repositories Loading

  1. metagenomics metagenomics Public

    A Nextflow workflow for QC, evaluation, and profiling of metagenomic samples using short- and long-read technologies

    Nextflow 36 3

  2. readlif readlif Public

    Leica Image Format (LIF) file reader for Python

    Python 34 13

  3. ProteinCartography ProteinCartography Public

    a pipeline to build similarity maps of protein space

    Jupyter Notebook 34 11

  4. seqqc seqqc Public

    A Nextflow pipeline to identify quality control issues with new sequencing data.

    Groovy 28

  5. sourmashconsumr sourmashconsumr Public

    Working with the outputs of sourmash in R

    Standard ML 27 3

  6. 2023-nr-clustering 2023-nr-clustering Public

    Clustering the NCBI nr database with mmseq2 (90% length, 90% identity). Inspired by the NCBI's experimental ClusteredNR database.

    Python 23 2

Repositories

Showing 10 of 90 repositories
  • agent-literature-review Public
    Arcadia-Science/agent-literature-review’s past year of commit activity
    Python 6 0 0 0 Updated Apr 21, 2025
  • arcadia-pycolor Public

    Python package for styling plots according to Arcadia's style guide

    Arcadia-Science/arcadia-pycolor’s past year of commit activity
    Python 5 MIT 0 10 (1 issue needs help) 0 Updated Apr 21, 2025
  • notebook-pub-template Public template
    Arcadia-Science/notebook-pub-template’s past year of commit activity
    HTML 4 MIT 0 2 0 Updated Apr 21, 2025
  • 2025-pi-disco-pub Public

    Notebooks for protease inhibitors pub

    Arcadia-Science/2025-pi-disco-pub’s past year of commit activity
    HTML 0 MIT 0 0 0 Updated Apr 18, 2025
  • 2025-g-p-atlas Public

    Repository for the initial G-P atlas pub that presents the model architecture and initial analyses

    Arcadia-Science/2025-g-p-atlas’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Apr 17, 2025
  • 2025-raman-spectrometer-comparison Public

    Repo for the notebook pub "Comparison of spontaneous Raman spectrometers"

    Arcadia-Science/2025-raman-spectrometer-comparison’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 24, 2025
  • 2025-hex-assay-analysis Public
    Arcadia-Science/2025-hex-assay-analysis’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 17, 2025
  • ramanalysis Public

    Package for loading and processing spectral data from Arcadia's Raman spectroscopy instruments.

    Arcadia-Science/ramanalysis’s past year of commit activity
    Python 3 MIT 0 0 0 Updated Mar 12, 2025
  • 2024-paired-token-masking Public
    Arcadia-Science/2024-paired-token-masking’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 10, 2025
  • readlif Public

    Leica Image Format (LIF) file reader for Python

    Arcadia-Science/readlif’s past year of commit activity
    Python 34 GPL-3.0 13 20 3 Updated Mar 6, 2025
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