castcollab tesserae2 issues

castcollab / tesserae2

Tesserae2: Fast recombination-aware global and local alignment.

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Rewrite in Cython

#35 lrvdijk closed 2 years ago
0
Branch with profalign code and tests.

#34 jamesemery opened 3 years ago
0
Branch for refactoring model.py

#33 winni2k closed 4 years ago
0
Adds mypy testing and type hints for sequence.py

#32 winni2k closed 4 years ago
5
Strange alignments with when using multiple targets, other anomalies

#31 jonn-smith opened 4 years ago
12
Black and Pylint don't have the same rules for hanging indentation blocks

#30 jonn-smith closed 4 years ago
1
Add initial docs; closes #27

#29 winni2k closed 4 years ago
3
Extremely minor log message change.

#28 jonn-smith closed 4 years ago
0
Add sphinx documentation

#27 winni2k closed 4 years ago
2
Write a regression test for "Termination index error"

#26 winni2k opened 4 years ago
0
Bugfix: Correct deletion traceback

#25 karljohanw closed 4 years ago
2
Add test for regression: entry point gone

#24 winni2k closed 4 years ago
0
Termination index error running some CAR-T data

#23 jonn-smith closed 4 years ago
2
Cleanup for dev env and CLI entry.

#22 jonn-smith closed 4 years ago
4
Baum-Welch

#21 winni2k opened 4 years ago
0
Exploring HMM libraries for speed improvement and code complexity reduction

#20 winni2k opened 4 years ago
0
Type hints for static analysis/documentation

#19 winni2k closed 4 years ago
0
Github actions continuous integration

#18 winni2k closed 4 years ago
0
tesserae.py needs a bunch of cleanup

#17 winni2k opened 4 years ago
5
Speed and RAM use improvements through chunked/compressed storage

#16 winni2k opened 4 years ago
1
Bugfix: Tesserae parallelization with ThreadPool on lower python versions than 3.8

#15 karljohanw closed 4 years ago
3
Commit 1a65367 slows down acceptance tests

#14 winni2k closed 4 years ago
13
Add flake8; apply black

#13 winni2k closed 4 years ago
1
Comment the main tesserae methods

#12 winni2k opened 4 years ago
3
Create tesserae.yml

#11 winni2k closed 4 years ago
1
Update travis yml

#10 winni2k closed 4 years ago
0
Add line length checking in docstrings with flake8

#9 winni2k closed 4 years ago
1
Replace argparse with click

#8 winni2k opened 4 years ago
0
Add continuous integration testing

#7 winni2k closed 4 years ago
0
Added CLI component to tesserae.

#6 jonn-smith closed 4 years ago
9
Parallelization of recurrence-calculations.

#5 karljohanw closed 4 years ago
8
Updated README with dev options.

#4 winni2k closed 4 years ago
1
Difficulties refactoring acceptance tests

#3 winni2k opened 4 years ago
4
Add a command line interface

#2 winni2k closed 4 years ago
10
Speed improvements through effective use of numpy?

#1 winni2k closed 4 years ago
3