Timothy R. Fallon, PhD's repositories
cas
Content Addressible Storage
mview
MView extracts and reformats the results of a sequence database search or multiple alignment.
container-ontology
Container ontology for use with PAML (Protocol Activity Markup Language)
jupyverse
A Jupyter server based on FastAPI
ot2-controller
A SiLA 2 complaint controller for an Opentrons OT-2 liquid handling robot.
IR-MALDESI-MS
Open source CAD models and C# software for making a low-cost IR-MALDESI instrument
primer3_nf
A Nextflow wrapper for primer3
Plateo
🤖 Python biolab automation library: parsers, reports generators, picklists simulators, and more
bioanalyzeR
R tools for Agilent electrophoresis data
repeatModeler2_nf
Nextflow workflow to easily run RepeatModeler with conda and singularity
macports-ports
The MacPorts ports tree
luciferase-PPX-predictor-nf
A Nextflow pipeline to try and automate some aspects of luciferase gene ab inito structure prediction
guppy_gpu_singularity
A Singularity file intended for SingularityHub, for the Oxford Nanopore Technologies guppy gpu caller. Based off https://hub.docker.com/r/genomicpariscentre/guppy/dockerfile
jupyter_notebooks
My personal Jupyter notebooks.
summarize_directory_contents_to_HTML
A python program with outputs & opens an HTML table summarizing the files in a directory
awesome-workflow-engines
A curated list of awesome open source workflow engines
mzmine2
MZmine 2 source repository
DnaFeaturesViewer
:eye: Python library to plot DNA sequence features (e.g. from Genbank files)
genomeScope_nf
Nextflow workflow for easy genomescope run
hardware
eVOLVER Hardware (PCB, 3D printed parts)
dpu
Data Processing Unit for eVOLVER
dockerfiles
My personal dockerfiles (probably broken)