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Circular-genome-tools
Circular genome tools is a sage package for working with circular genomes represented by signed or unsigned permutations.
https://cgt.joshuastevenson.me
GNU General Public License v3.0
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Update VERSION
#47
js51
closed
1 month ago
0
Add eigenvector method for partial traces
#46
js51
closed
1 month ago
0
Add configuration settings to Model
#45
js51
opened
3 months ago
0
Rewrite irreps for H_n
#44
js51
closed
1 year ago
0
Update python-publish.yml
#43
js51
closed
1 year ago
0
Add functionality for simulating genome rearrangements on a tree
#41
js51
closed
1 year ago
0
Simulations
#40
js51
closed
1 year ago
0
The start of a function to try and remove some of the compounding error issues. Needs to be revisited.
#39
js51
closed
1 year ago
0
Minor changes that never got pushed from last year
#38
js51
closed
1 year ago
0
Simplify language for model s_element
#37
js51
opened
2 years ago
0
Add support for computing conjugacy classes
#36
js51
closed
2 years ago
0
Make it easier to compute MLEs for multiple genomes
#35
js51
closed
1 year ago
0
Bug fixes and small changes for RECOMB-CG paper submission
#34
js51
closed
2 years ago
0
add binning and other routines
#33
js51
closed
2 years ago
0
Fix gap irreps by transposing, use numpy eigenvalues
#32
js51
closed
2 years ago
0
Export images that inherit fonts from LaTeX document rather than using embedded ones
#31
js51
opened
3 years ago
0
Ensure every function has a docstring
#30
js51
opened
3 years ago
0
Restructure likelihood computation
#29
js51
closed
3 years ago
0
Bug fixes
#28
js51
closed
3 years ago
0
Rebase
#27
js51
closed
3 years ago
0
Rebase
#26
js51
closed
3 years ago
0
Develop
#25
js51
closed
3 years ago
0
Update develop
#24
js51
closed
3 years ago
0
Update develop (#20)
#23
js51
closed
3 years ago
0
Improve caching
#22
js51
closed
3 years ago
0
Update develop
#20
js51
closed
3 years ago
0
Documentation
#19
js51
closed
3 years ago
0
add docs, remove * imports
#18
js51
closed
3 years ago
0
More distances, pytest now working with sage
#17
js51
closed
3 years ago
0
Get pytest working with sage
#16
js51
closed
3 years ago
0
Add likelihood functions
#15
js51
closed
3 years ago
0
Model elements
#13
js51
closed
3 years ago
1
Add models
#12
js51
closed
3 years ago
0
Regular representation of zs, functions for dealing with formal sums of genomes!
#11
js51
closed
3 years ago
0
Fix __call__ to work as well as cycles. Maybe just make it call cycles and leave all the hard work to cycles.
#10
js51
closed
3 years ago
0
Implement checks for certain model properties, for example and possible missing rearrangements (like inverses)
#9
js51
opened
3 years ago
0
Remove old code, replace most of it.
#8
js51
closed
3 years ago
0
Develop
#7
js51
closed
3 years ago
0
Rewrite
#6
js51
closed
3 years ago
0
Lots of misc. new stuff, fixes
#5
js51
closed
3 years ago
0
Improve genome visualisation module
#4
js51
opened
3 years ago
1
Develop
#3
js51
closed
3 years ago
0
Develop
#2
js51
closed
3 years ago
0
Some new functions and some fixes
#1
js51
closed
4 years ago
0