Owner

Jhsmit

9 indexed repositories · View on GitHub

PyHDX
Derive ΔG for single residues from HDX-MS data

Jupyter Notebook · 32 stars
ColiCoords
Single-cell fluorescence microscopy data analysis

Python · 26 stars
PymageJ
Python tools for ImageJ

Python · 13 stars
dont-fret
Don't FRET: A python webserver for confocal smFRET burst search

Python · 3 stars
ipymolstar-demo
jupyterlite demo of ipymolstar

Jupyter Notebook · 2 stars
ipyketcher
Ketcher editor as anywidget

JavaScript · 1 star
slimfit
Symfit's little brother

Python · 0 stars
awesome-solara
Awesome solara showcase and examples

Python · 0 stars
cookiecutter-reproducible-analysis
Cookiecutter for creating a project structure facilitating reproducible analysis

Python · 0 stars

Open All

pickling is broken Open

bug

Jhsmit/slimfit#14 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
example notebook is outdated Open

Jhsmit/ipymolstar-demo#4 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
use curve peeling/stripping for initial guesses of exponential fit Open

enhancement

Jhsmit/PyHDX#29 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
check edge cases for ignoring prolines Open

bug invalid

Jhsmit/PyHDX#32 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
download txt file with data summary Open

enhancement

Jhsmit/PyHDX#41 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
view vertical line in both plots during mouseover event Open

enhancement

Jhsmit/PyHDX#57 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
allow export of k_int Open

enhancement GUI

Jhsmit/PyHDX#70 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
k_int vs kint Open

good first issue

Jhsmit/PyHDX#81 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
toestand Reactive event Open

Jhsmit/awesome-solara#1 · 4 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
support photon-hdf5 files Open

Jhsmit/dont-fret#1 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
support ttrlib as file reader Open

enhancement

Jhsmit/dont-fret#3 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
drop vegafusion Open

Jhsmit/dont-fret#7 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
hooks should have hook name and function name Open

enhancement

Jhsmit/dont-fret#8 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Startup is slow Open

Jhsmit/dont-fret#10 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Add logging Open

Jhsmit/dont-fret#11 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
burst figure selections should remember burst search setting Open

Jhsmit/dont-fret#12 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
dont-fret serve start directory should be cwd Open

Jhsmit/dont-fret#14 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
panel AnyWidgetComponent doesnt show Open

Jhsmit/ipyketcher#1 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
reports using mkdocs Open

Jhsmit/cookiecutter-reproducible-analysis#1 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
fatal: not a git repository (or any of the parent directories): .git Open

Jhsmit/cookiecutter-reproducible-analysis#2 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
figure panels need dynamic titles Open

GUI

Jhsmit/PyHDX#98 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
pytorch diff eqns Open

Jhsmit/PyHDX#130 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Correct k_int for percentage D Open

enhancement investigate

Jhsmit/PyHDX#136 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Add deltaG graph to link x range Open

enhancement GUI

Jhsmit/PyHDX#155 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Streched exponential fitting Open

enhancement wontfix

Jhsmit/PyHDX#159 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Allow NaN in batch fitting Open

enhancement Fitting investigate

Jhsmit/PyHDX#174 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Exported dataframes with r_numbers should have sequence information in them Open

enhancement

Jhsmit/PyHDX#193 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Relay error messages to log in GUI Open

enhancement GUI

Jhsmit/PyHDX#194 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Log dir in config Open

enhancement GUI

Jhsmit/PyHDX#196 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
color transform as yaml Open

enhancement GUI

Jhsmit/PyHDX#202 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
C terminal residue intrinsic rate of exchange Open

investigate

Jhsmit/PyHDX#211 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
docs fitting example math render Open

documentation

Jhsmit/PyHDX#224 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Reloading fit results is slow Open

enhancement Fitting

Jhsmit/PyHDX#229 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Allow gracious failing of estimating errors Open

enhancement Fitting good first issue

Jhsmit/PyHDX#230 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Initial guesses are slow Open

discussion enhancement Fitting investigate

Jhsmit/PyHDX#233 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Plot output should take alignments Open

enhancement

Jhsmit/PyHDX#235 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
fit result output include standard deviation of mse loss Open

enhancement Fitting

Jhsmit/PyHDX#236 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Force ddG color transform color maps to be divergent by default Open

enhancement good first issue GUI

Jhsmit/PyHDX#238 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Glasbey default colors when using discrete Open

enhancement good first issue GUI

Jhsmit/PyHDX#240 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Export session button needs loading indicator Open

enhancement good first issue GUI

Jhsmit/PyHDX#241 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Fit iterations per second in log output Open

enhancement GUI

Jhsmit/PyHDX#245 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Dask client should be optional Open

enhancement GUI

Jhsmit/PyHDX#261 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Allow other data formats as input Open

enhancement

Jhsmit/PyHDX#262 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Pyhdx process cli interface Open

enhancement

Jhsmit/PyHDX#263 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Unify hdx_set and hdxm_set Open

Jhsmit/PyHDX#265 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Unify fit_result fitresult Open

enhancement

Jhsmit/PyHDX#266 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Documentation for `pyhdx process` Open

enhancement

Jhsmit/PyHDX#268 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Test pickling / weighted averge initial guesses Open

enhancement Fitting

Jhsmit/PyHDX#270 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Align dataframes function should take dicts only Open

Jhsmit/PyHDX#274 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026
Web application reference docs superclass info not useful Open

documentation

Jhsmit/PyHDX#275 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 18, 2026

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