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@jbloomlab

jbloomlab

Jesse Bloom's lab GitHub account

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  1. phydms phydms Public

    phylogenetic analyses informed by deep mutational scanning data

    HTML 15 6

  2. dms_tools2 dms_tools2 Public

    software for the analysis and visualization of deep mutational scanning data

    Python 34 20

  3. dmslogo dmslogo Public

    draw sequence logos tailored to deep mutational scanning (DMS) data

    Jupyter Notebook 12 1

  4. neutcurve neutcurve Public

    Fit and plot neutralization curves

    Jupyter Notebook 9 4

Repositories

Showing 10 of 153 repositories
  • flu-seqneut-2026 Public

    Near real-time data on the human neutralizing antibody landscape to influenza virus as of the summer of 2026 to inform vaccine-strain selection

    jbloomlab/flu-seqneut-2026's past year of commit activity
    Python 2 MIT 0 0 0 Updated Sep 15, 2026
  • bloomlab-coding-standards Public

    standards for coding using agentic AI (tailed for Claude Code)

    jbloomlab/bloomlab-coding-standards's past year of commit activity
    0 0 0 0 Updated Sep 10, 2026
  • seqneut-pipeline Public

    Pipeline for analyzing sequencing-based neutralization assays

    jbloomlab/seqneut-pipeline's past year of commit activity
    Python 3 MIT 2 1 0 Updated Sep 7, 2026
  • prot-struct-viz Public

    Configurable interactive views of protein structures

    jbloomlab/prot-struct-viz's past year of commit activity
    Python 0 MIT 0 0 0 Updated Sep 2, 2026
  • gga_codon_muts_oligo_design Public

    Design oligos for Golden-Gate assembly mutagenesis

    jbloomlab/gga_codon_muts_oligo_design's past year of commit activity
    Python 0 MIT 1 0 0 Updated Sep 1, 2026
  • nextstrain-prot-titers-tree Public

    Build interactive `nextstrain` trees on protein sequences designed to display neutralization titer values

    jbloomlab/nextstrain-prot-titers-tree's past year of commit activity
    Python 0 MIT 1 1 0 Updated Aug 25, 2026
  • tree-annotated-plot Public

    Annotate the axis of an Altair / Vega-Lite plot with a phylogenetic tree.

    jbloomlab/tree-annotated-plot's past year of commit activity
    Python 0 MIT 0 0 0 Updated Aug 20, 2026
  • neutcurve Public

    Fit and plot neutralization curves

    jbloomlab/neutcurve's past year of commit activity
    Jupyter Notebook 9 GPL-3.0 4 0 0 Updated Aug 13, 2026
  • SARS2-mut-fitness Public

    Observed substitution counts of SARS-CoV-2 compared to those expected under the mutation rates

    jbloomlab/SARS2-mut-fitness's past year of commit activity
    Jupyter Notebook 22 MIT 8 3 1 Updated Aug 6, 2026
  • jbloomlab.github.io Public

    A website for the Bloom lab

    jbloomlab/jbloomlab.github.io's past year of commit activity
    Vue 1 0 0 0 Updated Aug 3, 2026
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