BioMemPhys-FAU domhmm issues

BioMemPhys-FAU / domhmm

Open source package to identify nano- and microdomains in Molecular Dynamics simulations of bio-membranes.

https://www.biomemphys.nat.fau.de

GNU General Public License v2.0

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Pinning fixed versions for dependencies

#53 m-a-r-i-u-s opened 1 day ago
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Dependency Update

#52 yusuferentunc closed 2 days ago
0
Update base.py

#51 m-a-r-i-u-s closed 1 week ago
0
Documentation Updates on TMD Protein and Asymmetric Membrane

#49 yusuferentunc closed 2 weeks ago
0
Update Readthedocs configuration

#48 yusuferentunc closed 2 weeks ago
0
Update domhmm.py - Fix residue ordering

#47 m-a-r-i-u-s closed 2 weeks ago
0
implement logic of transmembrane domain inclusion into the area per lipid calculation

#46 yusuferentunc closed 1 month ago
1
Transmembrane Domain Adaptation

#45 yusuferentunc closed 2 weeks ago
2
Fix residue indexing

#44 yusuferentunc closed 1 month ago
0
Reuse HMM Tests and Documentation

#43 yusuferentunc closed 1 month ago
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Fix resid order

#42 yusuferentunc closed 1 month ago
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Parallelise DomHMM

#41 yusuferentunc opened 1 month ago
1
topology has to have all the lipids before the cholesterol (by resnum)

#40 n1c0pk closed 1 month ago
2
Reuse hmm

#39 m-a-r-i-u-s closed 1 month ago
0
Introduced tqdm

#38 m-a-r-i-u-s closed 1 month ago
1
Add clustering for both leaflets

#37 m-a-r-i-u-s closed 2 months ago
0
Fix double counting of residues

#36 m-a-r-i-u-s closed 2 months ago
0
Fix error cause of lipid locating only in one leaflet

#35 yusuferentunc closed 2 months ago
0
Bug - Asymmetric Membrane for lipids in just one leaflet

#34 m-a-r-i-u-s closed 2 months ago
3
Update base.py

#33 m-a-r-i-u-s closed 2 months ago
0
Clustering Result Implementation

#32 yusuferentunc closed 2 months ago
0
Documentation Implementation

#31 yusuferentunc closed 2 months ago
0
Add GMM and HMM Parameters

#30 yusuferentunc closed 2 months ago
0
Logging Implementation

#29 yusuferentunc closed 2 months ago
0
New leaflet selection interface

#28 m-a-r-i-u-s closed 2 months ago
0
Update unit tests

#27 m-a-r-i-u-s closed 2 months ago
1
Added fix for vornoi area calculation

#26 m-a-r-i-u-s closed 2 months ago
0
LeafletFinder Removal in MDAnalysis 3.0.0

#25 m-a-r-i-u-s opened 3 months ago
1
Made leaflet selection rate a user-defined variable. Default is set t…

#24 m-a-r-i-u-s closed 3 months ago
0
Leaflet Wise Training for Asymmetric Simulations

#23 yusuferentunc closed 3 months ago
0
Z Score Calculation

#22 yusuferentunc closed 3 months ago
0
Sparse Weight Matrix

#21 yusuferentunc closed 3 months ago
0
Order Parameter Calculation Fix

#20 yusuferentunc closed 3 months ago
0
Unit Test Implementation

#19 yusuferentunc closed 3 months ago
0
Option for Leaflet Oriented Model Training

#18 yusuferentunc closed 3 months ago
0
Speed up Voronoi

#17 m-a-r-i-u-s closed 3 months ago
2
Data fix

#16 yusuferentunc closed 4 months ago
0
Sterol and Flip-Flop Logic Implementation

#15 yusuferentunc closed 4 months ago
0
Something to take care of!

#14 m-a-r-i-u-s closed 3 months ago
4
DomHMM Implementation

#13 yusuferentunc closed 4 months ago
0
User Friendly Options

#12 yusuferentunc opened 4 months ago
0
Involing of Cholesterol and Flip-Flop Solution

#11 yusuferentunc closed 4 months ago
2
Analysis Result Data Change

#10 yusuferentunc closed 4 months ago
0
DomHMM Implementation Fix

#9 yusuferentunc closed 4 months ago
3
Pipeline fix

#8 yusuferentunc closed 5 months ago
0
Local Normal Calculation Method

#7 yusuferentunc opened 5 months ago
0
Area Per Lipid Calculation

#6 yusuferentunc closed 5 months ago
2
Adaptation of DomHMM to General Simulations

#5 yusuferentunc closed 2 weeks ago
2
Packaging DomHMM

#4 yusuferentunc opened 6 months ago
2
CI Upgrade and Unit Tests for DomHMM

#3 yusuferentunc closed 3 months ago
4