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mjo22
/
cryojax
Cryo electron microscopy image simulation and analysis built on JAX.
https://mjo22.github.io/cryojax/
GNU Lesser General Public License v2.1
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implement gaussian mixture atomic potential integrator closes #224
#225
DSilva27
closed
4 months ago
2
Implement integrator that simulates an image from an atom potential directly
#224
DSilva27
closed
4 months ago
4
Get rid of coordinate wrappers
#223
mjo22
closed
4 months ago
0
LinearScatteringTheory -> WeakPhaseScatteringTheory
#222
mjo22
closed
4 months ago
0
implement centering atoms closes #220
#221
DSilva27
closed
4 months ago
0
PDB loader should center structures
#220
DSilva27
closed
4 months ago
2
Add tutorial notebook for building a voxel grid from a scattering potential
#219
mjo22
closed
4 months ago
1
Added appropriate prefactors in _voxel_potential
#218
jkawamura8
closed
4 months ago
1
Remove MRCs for unit tests from git LFS
#217
mjo22
closed
4 months ago
1
API re-vamp of the atoms -> voxel grid pipeline.
#216
mjo22
closed
4 months ago
1
Bump peaceiris/actions-gh-pages from 3 to 4
#215
dependabot[bot]
closed
4 months ago
0
Settle on naming choices in new API
#214
mjo22
closed
4 months ago
1
make notebooks on different image formation pipelines
#213
geoffwoollard
opened
5 months ago
1
API Update in preparation for supporting more complex scattering theories.
#212
mjo22
closed
5 months ago
3
Starfile writer
#211
mjo22
closed
1 week ago
0
Install Issues on OSX
#210
j-c-c
closed
2 months ago
3
Create cryojax.experimental submodule
#209
mjo22
closed
4 months ago
3
add in bioem marginal distribution into cryojax.inference.distributions
#208
geoffwoollard
opened
5 months ago
3
Add a grid search API in cryojax.inference
#207
mjo22
closed
4 months ago
2
Update _voxel_potential.py
#206
jkawamura8
closed
5 months ago
1
fix merge conflict
#205
mjo22
closed
5 months ago
0
Clean up cryojax subpackages for readability
#204
mjo22
closed
5 months ago
0
Functionality to generate uniform samples on SO3?
#203
mjo22
closed
4 months ago
1
Change recommendation for how to instantiate pytrees with vmap
#202
mjo22
closed
6 months ago
0
Add a grid search into cryojax?
#201
mjo22
closed
4 months ago
6
Move the accelerating voltage from the `CTF` to the `Instrument`
#200
mjo22
closed
5 months ago
4
Support for imaging experimental density maps should be more explicit
#198
mjo22
closed
4 months ago
1
Move the accelerating voltage from the `CTF`
#196
mjo22
closed
5 months ago
2
Fix bug that stops gradients with respect to rotations and pixel size rescalings
#195
mjo22
closed
6 months ago
0
Bug that stops gradients with respect to variables that are used to operate on coordinate systems
#194
mjo22
closed
6 months ago
0
Renaming that gives coordinate systems that are in pixels an “_in_pixels” ending
#193
mjo22
closed
6 months ago
0
Add dynamic type hints for image shapes at run-time
#192
mjo22
closed
6 months ago
1
Unit testing refactor
#191
mjo22
opened
6 months ago
0
fixes to allow for runtime type checking in tests
#190
mjo22
closed
6 months ago
0
Debug workflows
#189
mjo22
closed
6 months ago
0
Debug workflows
#188
mjo22
closed
6 months ago
0
Bump patrick-kidger/action_update_python_project from 2 to 3
#187
dependabot[bot]
closed
6 months ago
0
Bump actions/upload-artifact from 2 to 4
#186
dependabot[bot]
closed
6 months ago
1
Bump actions/checkout from 2 to 4
#185
dependabot[bot]
closed
6 months ago
0
Bump actions/setup-python from 2 to 5
#184
dependabot[bot]
closed
6 months ago
0
Implement RELION dataloaders
#183
mjo22
closed
6 months ago
2
Build a class that computes the log-likelihood over ensembles?
#182
mjo22
closed
4 months ago
3
Check compatibility with runtime type checkers
#181
mjo22
closed
6 months ago
1
update branch
#180
mjo22
closed
6 months ago
0
Notes on Cowley (2006) "Scattering factors for the diffraction of electrons by crystalline solids" and references therein
#179
geoffwoollard
opened
6 months ago
5
Reorganization of the ImagePipeline
#178
mjo22
closed
6 months ago
1
Accuracy of the Atoms to Voxel Model
#177
ehthiede
opened
6 months ago
4
update branch
#176
mjo22
closed
6 months ago
0
starfile branch update, again
#175
mjo22
closed
6 months ago
0
First pass at a cryojax.core submodule
#174
mjo22
closed
6 months ago
0
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