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2024-11-30	Tao Liu (τν)	Merge pull request #678 from kaizhang/master	commit \| commitdiff \| tree
2024-11-29	Kai Zhang	Update PeakIO.py	commit \| commitdiff \| tree
2024-11-14	Tao Liu (τν)	Update INSTALL.md	commit \| commitdiff \| tree
2024-10-30	Tao Liu (τν)	Update hmmratac.md	commit \| commitdiff \| tree
2024-10-23	Tao Liu (τν)	Merge pull request #668 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-10-22	Tao Liu (τν)	Delete MACS3/Signal/CallPeakUnit.py	commit \| commitdiff \| tree
2024-10-08	Tao Liu (τν)	Merge pull request #664 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-10-04	Tao Liu (τν)	Merge pull request #662 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-09-07	Tao Liu (τν)	Update meta.yaml	commit \| commitdiff \| tree
2024-09-07	Tao Liu (τν)	Update index.md (remove an extra space...)	commit \| commitdiff \| tree
2024-09-07	Tao Liu (τν)	Merge pull request #657 from macs3-project/doc/macs3...	commit \| commitdiff \| tree
2024-05-16	Tao Liu (τν)	Merge pull request #645 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-05-16	Tao Liu (τν)	Merge branch 'master' into feat/macs3/narrowpeak	commit \| commitdiff \| tree
2024-05-07	Tao Liu (τν)	Merge pull request #642 from macs3-project/doc/macs3...	commit \| commitdiff \| tree
2024-04-26	Tao Liu (τν)	Merge pull request #640 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-03-28	Tao Liu (τν)	Merge pull request #635 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-03-05	Tao Liu (τν)	Merge pull request #631 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-03-02	Tao Liu (τν)	Merge pull request #632 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-03-02	Tao Liu (τν)	Update publish-to-pypi.yml	commit \| commitdiff \| tree
2024-03-02	Tao Liu (τν)	Update publish-to-pypi.yml	commit \| commitdiff \| tree
2024-03-02	Tao Liu (τν)	Update publish-to-pypi.yml	commit \| commitdiff \| tree
2024-02-29	Tao Liu (τν)	Merge pull request #630 from bgruening/master	commit \| commitdiff \| tree
2024-02-28	Björn Grüning	use fallback	commit \| commitdiff \| tree
2024-02-28	Björn Grüning	use CC instead of gcc	commit \| commitdiff \| tree
2024-02-28	Tao Liu (τν)	Merge pull request #629 from mr-c/spelliing	commit \| commitdiff \| tree
2024-02-27	Tao Liu (τν)	Merge pull request #627 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-02-24	Tao Liu (τν)	Update README.md -- update badge	commit \| commitdiff \| tree
2024-02-24	Tao Liu (τν)	Merge pull request #625 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-02-24	Tao Liu (τν)	Merge pull request #624 from mr-c/invalid_escape_sequence	commit \| commitdiff \| tree
2024-02-23	Tao Liu (τν)	Merge pull request #623 from mr-c/python3	commit \| commitdiff \| tree
2024-02-23	Tao Liu (τν)	Merge pull request #622 from macs3-project/release...	commit \| commitdiff \| tree
2024-02-20	Tao Liu (τν)	Merge pull request #620 from macs3-project/misc/macs3...	commit \| commitdiff \| tree
2024-02-16	Tao Liu (τν)	Merge pull request #619 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-02-16	Tao Liu (τν)	Merge branch 'master' into feat/macs3/test_peak_overlap	commit \| commitdiff \| tree
2024-02-13	Philippa Doherty	Merge pull request #618 from macs3-project/doc/macs3...	commit \| commitdiff \| tree
2024-01-17	Tao Liu (τν)	Merge pull request #612 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2024-01-10	philippadoherty	bring branch up to speed from last PR Merge branch...	commit \| commitdiff \| tree
2024-01-10	Tao Liu (τν)	Merge pull request #611 from macs3-project/fix/macs3...	commit \| commitdiff \| tree
2024-01-10	philippadoherty	remove cython from setup.py requirements	commit \| commitdiff \| tree
2024-01-10	philippadoherty	fix labels for signals	commit \| commitdiff \| tree
2023-12-05	Tao Liu (τν)	Merge pull request #600 from macs3-project/doc/macs3...	commit \| commitdiff \| tree
2023-11-28	philippadoherty	fix inlineMath vs displayMath	commit \| commitdiff \| tree
2023-11-22	philippadoherty	minor changes to contributing	commit \| commitdiff \| tree
2023-11-21	philippadoherty	change equation wrappers to double $$	commit \| commitdiff \| tree
2023-11-16	philippadoherty	add mathjax configuration and jekyll plugin	commit \| commitdiff \| tree
2023-11-15	Tao Liu (τν)	Update README.md	commit \| commitdiff \| tree
2023-11-15	Tao Liu (τν)	Merge pull request #597 from macs3-project/doc/macs3...	commit \| commitdiff \| tree
2023-08-12	Tao Liu (τν)	Merge pull request #589 from tjni/clean-up-build-dependencies	commit \| commitdiff \| tree
2023-08-11	Theodore Ni	remove pip and wheel from build dependencies	commit \| commitdiff \| tree
2023-08-09	Tao Liu (τν)	Merge pull request #587 from mr-c/link_libm	commit \| commitdiff \| tree
2023-08-03	Tao Liu (τν)	Merge pull request #580 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2023-08-03	Tao Liu (τν)	Merge pull request #579 from macs3-project/fix/macs3...	commit \| commitdiff \| tree
2023-08-01	Tao Liu (τν)	Merge pull request #573 from ggraham/master	commit \| commitdiff \| tree
2023-07-30	Tao Liu (τν)	Merge pull request #576 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2023-07-30	Tao Liu (τν)	Merge branch 'master' into feat/macs3/hmmratac	commit \| commitdiff \| tree
2023-07-20	philippadoherty	fix callvar arguments	commit \| commitdiff \| tree
2023-07-20	Tao Liu (τν)	Merge pull request #565 from macs3-project/hmmratac_add_trai...	commit \| commitdiff \| tree
2023-07-14	philippadoherty	fix hmmratac tests 15, 15.1, 15.2	commit \| commitdiff \| tree
2023-07-14	philippadoherty	add standard_results for --model and -t options	commit \| commitdiff \| tree
2023-07-12	philippadoherty	add 15.1 and 15.2 hmmratac tests	commit \| commitdiff \| tree
2023-07-12	philippadoherty	clean up	commit \| commitdiff \| tree
2023-07-12	philippadoherty	rm peaks.sort	commit \| commitdiff \| tree
2023-07-12	philippadoherty	fix input for init_from_PeakIO	commit \| commitdiff \| tree
2023-07-12	philippadoherty	add conditions for -modelonly, -t	commit \| commitdiff \| tree
2023-07-12	philippadoherty	add -t and --modelonly	commit \| commitdiff \| tree
2023-06-23	Tao Liu (τν)	Merge pull request #563 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2022-10-05	Tao Liu (τν)	Merge pull request #527 from macs3-project/release...	commit \| commitdiff \| tree
2022-10-03	Tao Liu (τν)	Merge pull request #521 from macs3-project/feat/macs3...	commit \| commitdiff \| tree
2022-09-30	philippadoherty	Merge branch 'feat/macs3/hmmratac' of https://github... ...feat/macs3/hmmratac' of https://github.com/macs3-project/MACS into feat...	commit \| commitdiff \| tree
2022-09-30	philippadoherty	update unittest	commit \| commitdiff \| tree
2022-09-15	philippadoherty	change unittest	commit \| commitdiff \| tree
2022-09-15	philippadoherty	round transmat_ to 4 decimals	commit \| commitdiff \| tree
2022-07-19	philippadoherty	rename options.hmm_binsize if hmm_model_init used	commit \| commitdiff \| tree
2022-07-19	philippadoherty	save binsize to model	commit \| commitdiff \| tree
2022-07-19	philippadoherty	include region definition in hmm_model_init	commit \| commitdiff \| tree
2022-07-19	philippadoherty	move hmm_model_init to HMMR_HMM	commit \| commitdiff \| tree
2022-07-19	philippadoherty	add n_features	commit \| commitdiff \| tree
2022-07-18	philippadoherty	added model parser (needs work)	commit \| commitdiff \| tree
2022-06-10	philippadoherty	try different minlen condition	commit \| commitdiff \| tree
2022-06-10	philippadoherty	add minlen option to save_accessible_regions	commit \| commitdiff \| tree
2022-06-10	philippadoherty	fix index out of range in save_accessible_regions	commit \| commitdiff \| tree
2022-06-09	philippadoherty	rm if accessible_regions < 3	commit \| commitdiff \| tree
2022-06-09	philippadoherty	fix index out of range in save_accessible_regions	commit \| commitdiff \| tree
2022-06-09	philippadoherty	deal with regions < 3	commit \| commitdiff \| tree
2022-06-07	philippadoherty	generate_states_path fix start_pos	commit \| commitdiff \| tree
2022-06-07	philippadoherty	except ValueError with faulty means, stddevs	commit \| commitdiff \| tree
2022-06-03	philippadoherty	change to sorted(chrnames)	commit \| commitdiff \| tree
2022-06-03	philippadoherty	changed broadpeak for loop range	commit \| commitdiff \| tree
2022-05-26	philippadoherty	changed format of block_sizes, block_starts	commit \| commitdiff \| tree
2022-05-25	philippadoherty	correct candidate_bins start and end_pos	commit \| commitdiff \| tree
2022-05-23	philippadoherty	minor code cleanup	commit \| commitdiff \| tree
2022-05-23	philippadoherty	minor change in grouping accessible_regions	commit \| commitdiff \| tree
2022-05-23	philippadoherty	update method for generating broadpeak object	commit \| commitdiff \| tree
2022-05-20	philippadoherty	generate broadpeak object	commit \| commitdiff \| tree
2022-05-20	philippadoherty	isolate accessible regions in ouput file	commit \| commitdiff \| tree
2022-05-19	philippadoherty	rename output file _states.bed	commit \| commitdiff \| tree
2022-05-19	philippadoherty	change end_pos in output	commit \| commitdiff \| tree
2022-05-18	philippadoherty	fix method to clean output	commit \| commitdiff \| tree
2022-05-18	philippadoherty	minor fix for cleaning outputs	commit \| commitdiff \| tree
2022-04-29	philippadoherty	add new file to write clean output to	commit \| commitdiff \| tree
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