mRcSchwering/magic-soup issues and pull requests

#48 - Adherent vs suspension

Issue - State: open - Opened by mRcSchwering 3 months ago

#47 - Convenience function for plotting transcriptome

Issue - State: open - Opened by mRcSchwering about 1 year ago

#46 - Update Other simulations

Issue - State: open - Opened by mRcSchwering about 1 year ago

#45 - Better type definitions for generics

Issue - State: open - Opened by mRcSchwering about 1 year ago

#44 - Optional `cell_idxs` parameter

Issue - State: closed - Opened by mRcSchwering about 1 year ago

#43 - [Performance] Change number of cells less often

Issue - State: open - Opened by mRcSchwering about 1 year ago

#42 - [Performance] Batches for calculations

Issue - State: open - Opened by mRcSchwering about 1 year ago

#41 - [Performance] jit Kinetics functions

Issue - State: open - Opened by mRcSchwering about 1 year ago

#40 - [Performance] Kinetics.set_call_params in rust

Issue - State: open - Opened by mRcSchwering about 1 year ago

#39 - Stoichiometric number for regulatory domains

Issue - State: closed - Opened by mRcSchwering about 1 year ago - 1 comment

#38 - Feature: Coordinates for proteins

Issue - State: closed - Opened by mRcSchwering over 1 year ago - 3 comments
Labels: feature

#37 - Bug?: multiple loading of states?

Issue - State: closed - Opened by mRcSchwering over 1 year ago
Labels: bug

#36 - world.labels -> world.cell_labels

Issue - State: closed - Opened by mRcSchwering over 1 year ago - 2 comments

#35 - Methods for adding cells

Issue - State: closed - Opened by mRcSchwering over 1 year ago

#34 - Add method to export kinetics maps

Issue - State: open - Opened by mRcSchwering over 1 year ago - 1 comment

#33 - Bug: load_state empty sequences

Issue - State: closed - Opened by mRcSchwering over 1 year ago
Labels: bug

#32 - Batch argument for load_state, update_cells, add_cells

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: feature

#31 - Bug: world.n_cells can be off

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: bug

#30 - Rewrite docs

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: documentation

#29 - [Bug] is genome really updated?

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: bug

#28 - ignore_cell_params in load_state wrong

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 1 comment
Labels: bug

#27 - [Bug] Cell Survival

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: bug

#26 - [Bug] Loading world with different device

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: bug

#25 - Multiprocessing for genome generation

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 2 comments
Labels: enhancement

#24 - re-position cells method

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: enhancement

#23 - Bug? Make sure tensor references are constant

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: bug

#22 - cell divisions after division wrong

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 1 comment
Labels: bug

#21 - `workers` is not handled correctly

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 1 comment
Labels: bug

#20 - [Idea] Allow for higher diffusion rates

Issue - State: open - Opened by mRcSchwering almost 2 years ago - 1 comment
Labels: feature

#19 - [Performance] Refactor cell indexes

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 2 comments
Labels: enhancement

#18 - Re-order domain definitions

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 1 comment
Labels: bug, enhancement

#17 - [Idea] Cumulative Number of Divisions

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 2 comments
Labels: enhancement

#16 - [Idea] Adjust default mutation rates

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 2 comments
Labels: enhancement

#15 - [Idea] Generate Genome with desired Proteins

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 1 comment
Labels: enhancement

#14 - [Bug] Co-factors Stoichiometry

Issue - State: closed - Opened by mRcSchwering almost 2 years ago - 2 comments
Labels: bug

#13 - add arguments to from_file

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: enhancement

#12 - [idea] cell labels over generations

Issue - State: closed - Opened by mRcSchwering almost 2 years ago
Labels: enhancement

#11 - Add badges to repo

Issue - State: open - Opened by mRcSchwering about 2 years ago
Labels: enhancement

#10 - [Performance] Manage cell positions in Tensor

Issue - State: closed - Opened by mRcSchwering about 2 years ago - 1 comment
Labels: enhancement

#9 - [Performance] Express PyTorch Calculations more Efficiently

Issue - State: closed - Opened by mRcSchwering about 2 years ago
Labels: enhancement

#8 - [Idea] Electric Charge

Issue - State: open - Opened by mRcSchwering about 2 years ago
Labels: feature

#7 - [Performance] Use quickdna

Issue - State: closed - Opened by mRcSchwering about 2 years ago - 1 comment
Labels: enhancement

#6 - [Idea] How to deal with proteins?

Issue - State: open - Opened by mRcSchwering about 2 years ago
Labels: feature

#5 - [Idea] Regulation with memory

Issue - State: open - Opened by mRcSchwering about 2 years ago
Labels: feature

#4 - [Idea] Cell compartments

Issue - State: open - Opened by mRcSchwering about 2 years ago
Labels: feature

#3 - [Idea] Other Mutations

Issue - State: open - Opened by mRcSchwering about 2 years ago
Labels: feature

#2 - [Idea] Transcription/translation via neural net

Issue - State: closed - Opened by mRcSchwering about 2 years ago - 1 comment
Labels: enhancement

#1 - [Performance] Use other libraries to increase performance

Issue - State: closed - Opened by mRcSchwering about 2 years ago - 2 comments
Labels: enhancement

GitHub / mRcSchwering/magic-soup issues and pull requests