TrEE-TIMC/circhic issues and pull requests

#88 - FIX distutils is gone…

Pull Request - State: open - Opened by NelleV 9 months ago

#87 - MAINT/FIX Matplotlib changed the default again…

Pull Request - State: closed - Opened by NelleV almost 3 years ago

#86 - GitHub actions

Pull Request - State: closed - Opened by NelleV almost 3 years ago

#85 - MAINT switch to github actions

Pull Request - State: closed - Opened by NelleV almost 3 years ago

#84 - Input data

Issue - State: open - Opened by sarah872 almost 4 years ago

#83 - DOC: added citation

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

#82 - MAINT Releasing v0.4.0

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

#81 - ENH adding support for linear chromosomes in plot_bands

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

#80 - Linear

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

#79 - DOC Principle misc updated and re-adding Linear plots

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

#78 - DOC linear chrom lifting

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

#77 - DOC Principle added with explanation of circhic

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

#76 - ENH adding support for linear chromosomes

Pull Request - State: closed - Opened by NelleV over 4 years ago

#75 - MAINT 0.1.0 has been released

Pull Request - State: closed - Opened by NelleV over 4 years ago

#74 - DOC explicative image added

Pull Request - State: closed - Opened by ijunier over 4 years ago

#73 - DOC removing some latex commands

Pull Request - State: closed - Opened by ijunier over 4 years ago

#72 - MAINT py38 build doesn’t like latex

Pull Request - State: closed - Opened by NelleV over 4 years ago - 1 comment

#71 - DOC updating doc structure + small fixes

Pull Request - State: closed - Opened by NelleV over 4 years ago

#70 - DOC HiC -> Hi-C and side-by-side front images resolved

Pull Request - State: closed - Opened by ijunier over 4 years ago

#69 - MAINT reactivating python 3.8

Pull Request - State: closed - Opened by NelleV over 4 years ago

#68 - DOC adding user documentation

Pull Request - State: closed - Opened by NelleV over 4 years ago

#67 - MAINT reactivating py3.8

Pull Request - State: closed - Opened by NelleV over 4 years ago

#66 - DOC Adding schemas of circular contact maps

Pull Request - State: open - Opened by NelleV over 4 years ago

#65 - DOC table figures in index and added generate_borders in class

Pull Request - State: closed - Opened by ijunier over 4 years ago

#64 - DOC Ter domain aligned in coli map

Pull Request - State: closed - Opened by ijunier over 4 years ago

#63 - DOC misc text updating and file name renaming for better order

Pull Request - State: closed - Opened by ijunier over 4 years ago

#62 - Warnings to be removed

Issue - State: open - Opened by ijunier over 4 years ago
Labels: enhancement

#61 - plot_circular_heatmap_size must be updated

Issue - State: open - Opened by ijunier over 4 years ago - 1 comment
Labels: enhancement

#60 - DOC adding schemas to understand contact maps

Pull Request - State: closed - Opened by NelleV over 4 years ago

#59 - For testing purposes…

Pull Request - State: closed - Opened by NelleV over 4 years ago

#58 - For testing purposes.

Pull Request - State: closed - Opened by NelleV over 4 years ago

#57 - FIX rax/center of all polar plots.

Pull Request - State: closed - Opened by NelleV over 4 years ago

#56 - DOC Reshaping and updating of both gallery and front page images

Pull Request - State: closed - Opened by ijunier over 4 years ago

#55 - DOC examples sorted according to file name and added crescentus examples

Pull Request - State: closed - Opened by ijunier over 4 years ago - 2 comments

#54 - DOC removed datasets/ in technical examples

Pull Request - State: closed - Opened by ijunier over 4 years ago

#53 - DOC technical plots should not diplay real data

Pull Request - State: open - Opened by NelleV over 4 years ago

#52 - ENH r-axis uses matplotlib's defaults

Pull Request - State: closed - Opened by NelleV over 4 years ago

#51 - ENH/FIX returned object of load dataset more specific

Pull Request - State: closed - Opened by NelleV over 4 years ago

#50 - ax.text() is bugging when using a posy <0

Issue - State: open - Opened by ijunier over 4 years ago - 3 comments
Labels: bug, OSX

#49 - ENH now allow user to provide fontdict

Pull Request - State: closed - Opened by NelleV over 4 years ago

#48 - FIX stupid API for plot_bands

Pull Request - State: closed - Opened by NelleV over 4 years ago
Labels: Release Critical

#47 - Something is wrong in set_genomic_ticklabels

Issue - State: closed - Opened by ijunier over 4 years ago - 1 comment
Labels: bug, Release Critical

#46 - Something is wrong with plot_bands

Issue - State: closed - Opened by ijunier over 4 years ago
Labels: bug, Release Critical

#45 - "lengths" is a misleading key in data dict

Issue - State: closed - Opened by ijunier over 4 years ago - 2 comments
Labels: enhancement, Release Critical

#44 - slight mismatch between inner circle radius/center and raxis

Issue - State: open - Opened by ijunier over 4 years ago - 1 comment
Labels: bug

#43 - FIX tick labels for raxis now match data

Pull Request - State: closed - Opened by NelleV over 4 years ago

#42 - FIX plot works when outer_gdis = 0

Pull Request - State: closed - Opened by NelleV over 4 years ago

#41 - bone_r as the default colormap

Issue - State: open - Opened by ijunier over 4 years ago
Labels: suggestion

#40 - _plot_raxis must be updated

Issue - State: closed - Opened by ijunier over 4 years ago - 4 comments
Labels: Release Critical

#39 - When outer_gdis is 0, plot_hic plots nothing

Issue - State: closed - Opened by NelleV over 4 years ago - 1 comment
Labels: bug, Release Critical

#38 - plot_hic's inner radius is wrong.

Issue - State: closed - Opened by NelleV over 4 years ago - 5 comments
Labels: bug, Release Critical

#37 - ENH provide mapping between (x, y) and (theta, r)

Pull Request - State: closed - Opened by NelleV over 4 years ago

#36 - Building a mapping between HiC indexes and (theta,r)

Issue - State: closed - Opened by ijunier over 4 years ago
Labels: enhancement

#35 - Define border thickness using matplolib framework

Issue - State: open - Opened by ijunier over 4 years ago
Labels: enhancement

#34 - FIX now clone the gh-pages branch

Pull Request - State: closed - Opened by NelleV over 4 years ago

#33 - ENH/DOC use jupyterlab instead of notebooks

Pull Request - State: closed - Opened by NelleV over 4 years ago

#32 - DOC/ENH larger front page image

Pull Request - State: closed - Opened by NelleV over 4 years ago

#31 - ENH/doc attempt to activate binder

Pull Request - State: closed - Opened by NelleV over 4 years ago
Labels: documentation

#30 - Add some form of user documentation

Issue - State: closed - Opened by NelleV over 4 years ago
Labels: documentation, Release Critical

#29 - ENH adding side raxis

Pull Request - State: closed - Opened by NelleV over 4 years ago - 1 comment

#28 - FIX interpolation should be 'none' for images

Pull Request - State: closed - Opened by NelleV over 4 years ago

#27 - distances must be en bp

Issue - State: open - Opened by ijunier over 4 years ago - 1 comment
Labels: documentation, Release Critical

#26 - savefig in png format is bugging (mac OSX)

Issue - State: closed - Opened by ijunier over 4 years ago - 3 comments
Labels: bug, OSX

#25 - Add interpolation='None' in ax.imshow of both circular_data and border_im

Issue - State: closed - Opened by ijunier over 4 years ago - 1 comment
Labels: Release Critical

#24 - Tick labels and label of of genomic distances do not show up on jupyter (3.7)

Issue - State: closed - Opened by ijunier over 4 years ago - 2 comments
Labels: bug, OSX

#23 - Automatic location of figure legend

Issue - State: open - Opened by ijunier over 4 years ago - 1 comment
Labels: enhancement

#22 - fontsize is bugging in circhicfig.set_colorbar (jupyter 3.7)

Issue - State: open - Opened by ijunier over 4 years ago - 1 comment
Labels: bug, OSX

#21 - Border display depends on fig size

Issue - State: open - Opened by ijunier over 4 years ago - 1 comment
Labels: Release Critical

#20 - ENH adding mode 'distant'

Pull Request - State: closed - Opened by NelleV over 4 years ago
Labels: Release Critical

#19 - FIX/DOC the origin is set to North

Pull Request - State: closed - Opened by NelleV over 4 years ago

#18 - ENH Add two modes for inner_gdis

Issue - State: closed - Opened by NelleV over 4 years ago
Labels: enhancement, Release Critical

#17 - DOC the origin is set to the North of the plot and not the east!!!

Issue - State: closed - Opened by NelleV over 4 years ago
Labels: documentation, Release Critical

#16 - Adding B. subtilis & E. coli datasets.

Pull Request - State: closed - Opened by NelleV over 4 years ago

#15 - FIX only deploy doc for one of the branches

Pull Request - State: closed - Opened by NelleV over 4 years ago

#14 - MAINT Adding more travis environments

Pull Request - State: closed - Opened by NelleV over 4 years ago

#13 - FIX installation -- adding data folder

Pull Request - State: closed - Opened by NelleV over 4 years ago

#12 - Adding utility function + interfacing new options

Pull Request - State: closed - Opened by NelleV over 4 years ago

#11 - FIX warnings in generate_circular_map

Pull Request - State: closed - Opened by NelleV over 4 years ago

#10 - DOC Adding TOC for gallery

Pull Request - State: closed - Opened by NelleV over 4 years ago

#9 - DOC make the link between examples and code on the level of methods and not whole object

Issue - State: open - Opened by NelleV over 4 years ago
Labels: documentation

#8 - Adding borders to heatmap

Pull Request - State: closed - Opened by NelleV over 4 years ago

#7 - DOC split gallery between technical and biological examples

Pull Request - State: closed - Opened by NelleV over 4 years ago

#6 - ENH switched resolution to function by function

Pull Request - State: closed - Opened by NelleV over 4 years ago

#5 - ENH Support linear chromosome.

Issue - State: closed - Opened by NelleV over 4 years ago
Labels: enhancement

#4 - BUG Genomic ticks are still wrong

Issue - State: closed - Opened by NelleV over 4 years ago
Labels: bug, Release Critical

#3 - ENH Allow some form of plots for genomic marks.

Issue - State: open - Opened by NelleV over 4 years ago
Labels: enhancement

#2 - MAINT Explore warnings during the creation of the circular strip from data.

Issue - State: closed - Opened by NelleV over 4 years ago
Labels: Release Critical

#1 - ENH add possibility of adding all the different plots to specific axes provided to each plot

Issue - State: open - Opened by NelleV over 4 years ago
Labels: enhancement

GitHub / TrEE-TIMC/circhic issues and pull requests