berenslab/MorphoPy issues and pull requests

#127 - Hi How can I solve this issue~ Thanks!

Issue - State: closed - Opened by melancholy12 over 1 year ago - 5 comments

#126 - several path variables left in defaults

Issue - State: closed - Opened by jnsbck over 1 year ago - 1 comment

#125 - 0.7.2

Pull Request - State: closed - Opened by huangziwei over 1 year ago

#124 - `NeuronTree.smooth_neurites` is broken

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

#123 - compatibility networkx

Issue - State: closed - Opened by jnsbck over 1 year ago - 1 comment

#122 - fixed typo nx.adjacency_matrix

Pull Request - State: closed - Opened by ColoMAX over 1 year ago

#121 - Could not convert string to float

Issue - State: closed - Opened by sayali7 over 1 year ago - 1 comment

#120 - Need better docstring documentation.

Issue - State: closed - Opened by huangziwei almost 3 years ago
Labels: documentation

#119 - version on PyPI is not up-to-date.

Issue - State: closed - Opened by huangziwei almost 3 years ago - 2 comments

#118 - A problem with the method "smooth_neurites( )"

Issue - State: closed - Opened by Thinknoon about 3 years ago - 2 comments

#117 - Error when reading in swc files without indicated soma point(s)

Issue - State: closed - Opened by Visdoom over 3 years ago
Labels: bug

#116 - Automatically relabel node ids when loading a file in?

Issue - State: closed - Opened by Visdoom over 3 years ago - 2 comments
Labels: enhancement

#115 - Add MorphoPy to Open-Neuroscience

Issue - State: closed - Opened by amchagas almost 4 years ago - 2 comments

#114 - small bib changes

Pull Request - State: closed - Opened by danielskatz almost 4 years ago

#113 - Update paper.md

Pull Request - State: closed - Opened by oliviaguest almost 4 years ago

#112 - Morphometrics change slightly when numpy 1.19 is used

Issue - State: closed - Opened by Visdoom almost 4 years ago - 1 comment
Labels: bug

#111 - File naming for density output

Issue - State: closed - Opened by Visdoom about 4 years ago - 3 comments
Labels: bug

#110 - Joss revision

Pull Request - State: closed - Opened by Visdoom about 4 years ago

#109 - Error when running the "persistence_test" notebook

Issue - State: closed - Opened by mstimberg about 4 years ago - 1 comment

#108 - Command line tool: incorrect handling of filename without path

Issue - State: closed - Opened by mstimberg about 4 years ago - 2 comments
Labels: bug

#107 - Some suggestions for the command line interface

Issue - State: closed - Opened by mstimberg about 4 years ago - 2 comments
Labels: enhancement

#106 - Some suggestions for the README file

Issue - State: closed - Opened by mstimberg about 4 years ago - 5 comments

#105 - Typo: acylic

Issue - State: closed - Opened by emptymalei about 4 years ago

#104 - First example in the JOSS paper and the structure of the package

Issue - State: closed - Opened by emptymalei about 4 years ago - 7 comments
Labels: enhancement

#103 - Paper fixes

Pull Request - State: closed - Opened by arfon about 4 years ago

#102 - Export to pandas df

Issue - State: closed - Opened by philippberens over 6 years ago

#101 - update README and dependencies

Pull Request - State: closed - Opened by huangziwei over 6 years ago

#100 - Preprocessing data

Pull Request - State: closed - Opened by huangziwei over 6 years ago

#99 - three-ways branching, how to deal with it?

Issue - State: closed - Opened by huangziwei over 6 years ago - 1 comment

#98 - add density-related functions. fixed bugs in `graph_to_path(G)`.

Pull Request - State: closed - Opened by huangziwei over 6 years ago

#97 - persistence bar code can be returned for a Morph object

Pull Request - State: closed - Opened by Visdoom over 6 years ago - 5 comments

#96 - small clean-up.

Pull Request - State: closed - Opened by huangziwei over 6 years ago

#95 - Function to remove duplicate points in swc file

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment

#94 - fixed nan local angel; new show_summary()

Pull Request - State: closed - Opened by huangziwei over 6 years ago

#93 - Average local angle shows 'NaN'

Issue - State: closed - Opened by Visdoom over 6 years ago - 3 comments
Labels: bug

#92 - Unittests

Pull Request - State: closed - Opened by Visdoom over 6 years ago

#91 - remove code for strahler order, reason: some data contain three branc…

Pull Request - State: closed - Opened by huangziwei over 6 years ago

#90 - Key Error with 'dendritic length'

Issue - State: closed - Opened by Visdoom over 6 years ago

#89 - Reading in file causes a KeyError

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: bug

#88 - branch order legend in visualization

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment
Labels: enhancement

#87 - `m.summary()` fails on test data

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment
Labels: bug

#86 - Warning: Enter logging mode

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment
Labels: bug

#85 - trying to fix the morphopy import

Pull Request - State: closed - Opened by Visdoom over 6 years ago

#84 - Unittests

Pull Request - State: closed - Opened by Visdoom over 6 years ago

#83 - touch ups and documentation skeletons

Pull Request - State: closed - Opened by Visdoom over 6 years ago

#82 - Documentation

Pull Request - State: closed - Opened by Visdoom over 6 years ago

#81 - What is the difference between get_local_vector and get_remote_vector?

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment

#80 - undefined functions in _utils.py

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: bug

#79 - Unittests

Pull Request - State: closed - Opened by Visdoom over 6 years ago

#78 - create unit test for get_consecutive_pairs_of_elements_from_list(l, s=None, e=None)

Issue - State: closed - Opened by Visdoom over 6 years ago

#75 - create unit tests for read_swc(filepath, unit, voxelsize)

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment
Labels: unittests

#74 - create unit tests for read_imx(filepath, unit, voxelsize)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#73 - create unit tests for swc_to_linestack(filepath, unit, voxelsize=None)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests, paused

#72 - create unit tests for get_soma(df_swc)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#71 - create unit tests for connect_to_soma(current_path, soma)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests, paused

#70 - create unit tests for get_df_paths(df_swc)

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment
Labels: unittests, paused

#69 - create unit tests for find_connection(all_paths, soma, path_id, paths_to_ignore=[])

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests, paused

#68 - create unit tests for back2soma(df_paths, path_id)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests, paused

#67 - create unit tests for update_df_paths(df_paths, soma)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests, paused

#65 - create unit tests for find_closest_paths(all_paths, path_id)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests, paused

#61 - create unit tests for get_better_paths(df_paths, soma)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#59 - create unit tests for get_sorder(df_paths)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#58 - create unit tests for get_path_dendritic_length(path)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#57 - create unit tests for get_path_euclidean_length(path)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#56 - create unit tests for unique_row(a)

Issue - State: closed - Opened by Visdoom over 6 years ago - 1 comment
Labels: unittests

#55 - create unit tests for get_outer_terminals(all_terminals)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#53 - create unit tests for get_node_vector(df_paths, path_id)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#52 - create unit tests for get_nearest_recorded_point_vector(df_paths, path_id)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#51 - create unit tests for get_path_statistics(df_paths)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#50 - create unit tests for calculate_density(linestack, voxelsize)

Issue - State: closed - Opened by Visdoom over 6 years ago

#49 - create unit tests for get_average_angles()

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#48 - create unit tests for get_skeleton(ax, df_paths, soma, axis0, axis1, order_type, lims)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#47 - create unit tests for find_lims(df_paths)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#46 - create unit tests for get_path_on_stack(df_paths, voxelsize, coordinate_padding)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests, paused

#44 - create unit tests for print_summary(summary, unit)

Issue - State: closed - Opened by Visdoom over 6 years ago - 2 comments
Labels: unittests

#43 - create unit tests for init(self, data, unit='um', voxelsize=None, threshold=30, loglevel='INFO')

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#41 - create unit test for summary(self, save_to=None, print_results=True)

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests

#40 - create unit test for show_threeviews(self, order='c')

Issue - State: closed - Opened by Visdoom over 6 years ago
Labels: unittests