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@scbirlab

SCBIR Lab

README.md

Systems Chemical Biology of Infection and Resistance Laboratory

Logo of SCBIR lab

The SCBIR lab is based the Francis Crick Institute in London. We use large-scale genetics and chemical biology to study how pathogenic bacteria infect and evolve resistance to antibiotics.

Ultimately, we aim to enable antimicrobial therapies which exploit key weaknesses in the ability of pathogenic bacteria to infect and evolve resistance to antibiotics.

Our work focuses on these areas (click the links for more information):

Find out more about our research here!

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  1. streq streq Public

    🧬 Python utilities for working with nucleotide sequence strings.

    Python

  2. nemony nemony Public

    🧠 Deterministically encode text as mnemonic adjective-noun pairs.

    Python 1

  3. monte-barcode monte-barcode Public

    🔴🟢🔵⚫️ Generating sets of random DNA sequences optimized for use in high-throughput sequencing.

    Python

  4. bioino bioino Public

    💻 Interconverting FASTA, GFF, and CSV.

    Python

  5. ogilo ogilo Public

    ⛓️ Automating construction of oligo library sequences for oligo array synthesis.

    Python

  6. hts-tools hts-tools Public

    🏮 Parsing and analysing platereader absorbance and fluorescence data.

    Python

Repositories

Showing 10 of 20 repositories
  • rf2t-micro Public Forked from RosettaCommons/RoseTTAFold

    Stripped-down RosettaFold-2track code.

    scbirlab/rf2t-micro’s past year of commit activity
    Python 0 MIT 438 0 0 Updated Jul 30, 2024
  • sppid Public Forked from patrickbryant1/SpeedPPI

    Rapid protein-protein interaction network creation from multiple sequence alignments with Deep Learning

    scbirlab/sppid’s past year of commit activity
    Python 0 15 0 0 Updated Jul 28, 2024
  • nf-ont-call-variants Public

    Nextflow pipeline to call variants from Nanopore FASTQ files from bacterial clones relative to a wildtype control.

    scbirlab/nf-ont-call-variants’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Jul 21, 2024
  • envs Public

    Conda environment definition files for making environments that are useful for various analysis tasks

    scbirlab/envs’s past year of commit activity
    0 MIT 0 0 0 Updated Jul 5, 2024
  • 2024-Parkhill-BiochemJ Public

    Integrating bacterial molecular genetics with chemical biology for renewed antibacterial drug discovery: Jupyter notebook and data.

    scbirlab/2024-Parkhill-BiochemJ’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jul 4, 2024
  • .github Public

    Public profile repo

    scbirlab/.github’s past year of commit activity
    0 0 0 0 Updated Jun 20, 2024
  • nf-inspect Public

    🧬🔍 Nextflow pipeline to process demultiplexed Illumina paired-end FASTQ files from INSPECT experiments.

    scbirlab/nf-inspect’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Jun 5, 2024
  • schemist Public

    ⬢⬢⬢ Organizing and processing tables of chemical structures.

    scbirlab/schemist’s past year of commit activity
    Python 0 MIT 0 1 0 Updated Apr 26, 2024
  • carabiner Public

    🪨 Useful python utilities.

    scbirlab/carabiner’s past year of commit activity
    Python 0 MIT 0 1 0 Updated Apr 23, 2024
  • nf-sbrnaseq Public

    Nextflow pipeline to process demultiplexed Illumina paired-end FASTQ files from multiple bacterial samples into a gene x cell count table.

    scbirlab/nf-sbrnaseq’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Apr 5, 2024
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