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23 January 2022, 09:11:33 UTC
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4adea90 Asher Preska Steinberg07 January 2022, 17:44:00 UTCFixing go.mod file07 January 2022, 17:44:00 UTC
4eab478 Asher Preska Steinberg07 January 2022, 17:41:49 UTCFixing go.mod file07 January 2022, 17:41:49 UTC
9bed760 Asher Preska Steinberg20 December 2021, 22:08:09 UTCMinor tweak to fit.py20 December 2021, 22:08:09 UTC
95763e5 Asher Preska Steinberg29 October 2021, 15:53:42 UTCCleaning up 2021biorxiv branch29 October 2021, 15:53:42 UTC
b983a96 Asher Preska Steinberg29 October 2021, 14:43:27 UTCupdated README.md29 October 2021, 14:43:27 UTC
e0c8c66 Asher Preska Steinberg16 September 2021, 15:23:44 UTCCleaning up branch16 September 2021, 15:23:44 UTC
3786c21 Asher Preska Steinberg11 August 2021, 19:26:46 UTCCleaning up branch16 September 2021, 15:11:32 UTC
2fa7128 Asher Preska Steinberg11 August 2021, 19:25:36 UTCAPS226 submission scripts; update to collectFitAIC.py (cherry picked from commit 3a05c96f5a7766b1fca039bd064cfb6ed1edd590)16 September 2021, 15:10:51 UTC
e554a89 Asher Preska Steinberg11 August 2021, 19:25:36 UTCCleaning up branch16 September 2021, 15:09:10 UTC
be7ea1f Asher Preska Steinberg11 August 2021, 19:26:46 UTCAPS226 submission scripts; update to collectFitAIC.py (cherry picked from commit 14c045a8d5a456e5845ac0cb476698e0a586f8b7)16 September 2021, 15:06:22 UTC
9304567 Asher Preska Steinberg11 August 2021, 19:25:36 UTCAPS226 submission scripts; update to collectFitAIC.py (cherry picked from commit 3a05c96f5a7766b1fca039bd064cfb6ed1edd590)16 September 2021, 15:06:22 UTC
dd3e8be Asher Preska Steinberg11 August 2021, 13:53:52 UTCCommits for APS223-APS226; updates to FitComparison.py (cherry picked from commit 202e99407955b03d92f3aab0dc1d87bc5b7a5bd0)16 September 2021, 15:05:30 UTC
f3fe66d Asher Preska Steinberg10 August 2021, 00:04:07 UTCCommits for APS223-APS225; updates to FitComparison.py and collectFitAIC.py (cherry picked from commit 0706ae23a1627566b876a42b0df4b9fc41ffecbf)16 September 2021, 15:05:30 UTC
7686a00 Asher Preska Steinberg09 August 2021, 23:54:32 UTCCommits for APS223-APS225; updates to FitComparison.py and collectFitAIC.py (cherry picked from commit 380e8a687861032a9199ed634114508ec9af71ea)16 September 2021, 15:05:30 UTC
471c105 Asher Preska Steinberg05 August 2021, 16:25:12 UTCAPS223; update to mcorr-fit -- taking out histograms; think they're cause of memory overuse (cherry picked from commit e12824f06c79470a9ccb1f104aab49da38ff59f6)16 September 2021, 15:05:30 UTC
1e2e3c3 Asher Preska Steinberg05 August 2021, 12:25:11 UTCAPS223; update to mcorrFitCompare (analytical solution for residuals) (cherry picked from commit eee5a73e0d546aded383ef216429941c91df4f51)16 September 2021, 15:05:30 UTC
a014d52 Asher Preska Steinberg16 September 2021, 15:03:23 UTCCommits for APS223-APS226; updates to FitComparison.py (cherry picked from commit 202e99407955b03d92f3aab0dc1d87bc5b7a5bd0)16 September 2021, 15:03:23 UTC
a888879 Asher Preska Steinberg11 August 2021, 13:53:52 UTCCommits for APS223-APS226; updates to FitComparison.py (cherry picked from commit 202e99407955b03d92f3aab0dc1d87bc5b7a5bd0)16 September 2021, 15:00:42 UTC
c1355e4 Asher Preska Steinberg25 June 2021, 19:24:25 UTCUpdates to README.md; cleaning up the repo25 June 2021, 19:24:25 UTC
764c8d4 Asher Preska Steinberg25 June 2021, 18:43:07 UTCCleaning up mcorr-xmfa and mcorr-fit25 June 2021, 18:43:07 UTC
0717253 Asher Preska Steinberg25 June 2021, 18:23:35 UTCCleaning up mcorr-xmfa-2clades25 June 2021, 18:23:35 UTC
d733e8b Asher Preska Steinberg25 June 2021, 18:21:10 UTCCleaning up currentbio branch25 June 2021, 18:21:10 UTC
1fe1f1a Asher Preska Steinberg25 June 2021, 18:17:19 UTCInitial commit for currentbio branch25 June 2021, 18:17:19 UTC
6fd5bad Asher Preska Steinberg25 June 2021, 18:09:46 UTCSubmission script commits25 June 2021, 18:09:46 UTC
05bfea3 Asher Preska Steinberg20 May 2021, 17:59:33 UTCcommit of go.mod; APS202_SE_mcorr.py20 May 2021, 17:59:33 UTC
9572b26 Asher Preska Steinberg19 May 2021, 22:06:35 UTCAPS213 commit for fixing bug in mcorr-pair and mcorr-pair-sync for max-corr-length > 319 May 2021, 22:06:35 UTC
5d97eb8 Asher Preska Steinberg19 May 2021, 15:31:33 UTCSubmission script commits; collectBins.py commit for APS20219 May 2021, 15:31:33 UTC
7f9c6b9 Asher Preska Steinberg13 April 2021, 21:52:17 UTCAPS183 commit of collectFitAIC.py13 April 2021, 21:52:17 UTC
25ebbac Asher Preska Steinberg13 April 2021, 21:04:34 UTCAPS173 additional commits; APS176 commits; APS180 commits; APS183 commits; APS184 commits; APS185 commits; APS186 commits; initial commit of collectFitAIC.py13 April 2021, 21:04:34 UTC
30f7cdd Asher Preska Steinberg18 March 2021, 22:33:22 UTCAPS176 commit for collectModelComparison.py18 March 2021, 22:33:22 UTC
c1cae97 Asher Preska Steinberg18 March 2021, 15:37:17 UTCAPS162, APS169, APS170 commits; FitComparison.py commit for model comparison in APS176 -- can be run using "McorrFitCompare"18 March 2021, 15:37:17 UTC
961d85c Asher Preska Steinberg01 March 2021, 14:58:12 UTCAPS168 initial commits01 March 2021, 14:58:12 UTC
bbbd602 Asher Preska Steinberg17 February 2021, 15:31:29 UTCAPS166 commit; making mcorr-fit conform to mcorrFitOne; updates to cli.py and fit.py17 February 2021, 15:31:29 UTC
a5191f1 Asher Preska Steinberg12 February 2021, 16:49:24 UTCAPS164.5 commits for singleFit.py (mcorrFitOne)12 February 2021, 16:49:24 UTC
73326b9 Asher Preska Steinberg12 February 2021, 16:12:38 UTCAPS165 commit for converting mcorr .json outputs for single gene correlation profiles to .csv files12 February 2021, 16:12:38 UTC
fb836e3 Asher Preska Steinberg12 February 2021, 16:11:20 UTCAPS165 commit for converting mcorr .json outputs for single gene correlation profiles to .csv files12 February 2021, 16:11:20 UTC
cbb4d4e Asher Preska Steinberg11 February 2021, 16:02:26 UTCAPS164 commits; update to singleFit.py for options for fit method and max no function evals11 February 2021, 16:02:26 UTC
8c92dfa Asher Preska Steinberg11 February 2021, 15:17:52 UTCAPS164 commits; reversion of singleFit.py to original mcorr-fit; updates to FitCollector.go to get fit success, nfevals11 February 2021, 15:17:52 UTC
a880ebb Asher Preska Steinberg10 February 2021, 22:48:00 UTCAPS164 commits; comments on mcorr collect.go and mcorr-xmfa; updates to singleFit.py to include function eval limits10 February 2021, 22:48:00 UTC
a91439c Asher Preska Steinberg10 February 2021, 14:16:38 UTCAPS164 commit; reversion back to Levenberg-Marquardt10 February 2021, 14:16:38 UTC
aadc7bd Asher Preska Steinberg09 February 2021, 22:38:56 UTCAPS164 commit for collectParams.py (collects parameters inferred by original mcorr-fit package)09 February 2021, 22:38:56 UTC
a1a840f Asher Preska Steinberg09 February 2021, 22:11:02 UTCAPS164 commit for collectParams.py (collects parameters inferred by original mcorr-fit package)09 February 2021, 22:11:02 UTC
4673cd9 Asher Preska Steinberg09 February 2021, 20:05:11 UTCAPS164 commit for running just data with original mcorr-fit (singleFit.py)09 February 2021, 20:05:11 UTC
b6b4d17 Asher Preska Steinberg09 February 2021, 19:55:00 UTCAPS164 commit for running just data with original mcorr-fit (singleFit.py)09 February 2021, 19:55:00 UTC
166c131 Asher Preska Steinberg09 February 2021, 19:38:10 UTCAPS164 commit for running just data with original mcorr-fit (singleFit.py)09 February 2021, 19:38:10 UTC
3a78098 Asher Preska Steinberg09 February 2021, 19:22:11 UTCAPS164 commit for running just data with original mcorr-fit (singleFit.py)09 February 2021, 19:22:11 UTC
a3cece3 Asher Preska Steinberg09 February 2021, 19:15:17 UTCAPS164 commit for running just data with original mcorr-fit (mcorr-fit-single.py)09 February 2021, 19:15:17 UTC
b9bdb97 Asher Preska Steinberg08 February 2021, 19:12:32 UTCAPS164 commit for troubleshooting mcorr-fit; testing nelder-mead algorithm08 February 2021, 19:12:32 UTC
dec4e53 Asher Preska Steinberg08 February 2021, 19:10:04 UTCAPS164 commit for troubleshooting mcorr-fit; testing nelder-mead algorithm08 February 2021, 19:10:04 UTC
2b8164b Asher Preska Steinberg07 February 2021, 03:36:21 UTCAPS164 commit for troubleshooting mcorr-fit; testing adding in min=0 for params07 February 2021, 03:36:21 UTC
d11b9fe Asher Preska Steinberg06 February 2021, 21:40:48 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_increasing_iterations.ipynb06 February 2021, 21:40:48 UTC
c60ba40 Asher Preska Steinberg06 February 2021, 21:21:28 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_increasing_iterations.ipynb06 February 2021, 21:21:28 UTC
20ffd6e Asher Preska Steinberg06 February 2021, 18:57:19 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_increasing_iterations.ipynb06 February 2021, 18:57:19 UTC
4e03f1a Asher Preska Steinberg05 February 2021, 20:07:54 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_l_x_issue_APS2.ipynb05 February 2021, 20:07:54 UTC
57500df Asher Preska Steinberg05 February 2021, 19:41:38 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_l_x_issue_APS2.ipynb05 February 2021, 19:41:38 UTC
e58742d Asher Preska Steinberg05 February 2021, 19:23:18 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_l_x_issue_APS2.ipynb05 February 2021, 19:23:18 UTC
5edd459 Asher Preska Steinberg05 February 2021, 18:57:09 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_l_x_issue_APS2.ipynb05 February 2021, 18:57:09 UTC
686a1ee Asher Preska Steinberg05 February 2021, 17:35:10 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_l_x_issue_APS2.ipynb05 February 2021, 17:35:10 UTC
e39196f Asher Preska Steinberg05 February 2021, 16:45:44 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_l_x_issue_APS2.ipynb05 February 2021, 16:45:44 UTC
9e51722 Asher Preska Steinberg05 February 2021, 15:22:40 UTCAPS164 commit for troubleshooting mcorr-fit; update to match jupyter notebook APS164_l_x_issue_APS1.ipynb05 February 2021, 15:22:40 UTC
ce3810b Asher Preska Steinberg03 February 2021, 18:47:09 UTCAPS164 commit for troubleshooting mcorr-fit; updates to match jupyter notebook APS164_mcorr_Fit_troubleshooting_APS4.ipynb03 February 2021, 18:47:09 UTC
ea13d79 Asher Preska Steinberg03 February 2021, 02:30:50 UTCAPS164 commit for troubleshooting mcorr-fit; updates to match jupyter notebook APS164_mcorr_Fit_troubleshooting_APS4.ipynb03 February 2021, 02:30:50 UTC
8ddafca Asher Preska Steinberg03 February 2021, 00:53:39 UTCAPS164 commit for troubleshooting mcorr-fit; updates to match jupyter notebook APS164_mcorr_Fit_troubleshooting_APS3.ipynb and with same min/max as original mcorr-fit03 February 2021, 00:53:39 UTC
7dc7e1e Asher Preska Steinberg02 February 2021, 22:58:00 UTCAPS164 commit for troubleshooting mcorr-fit; updates to match jupyter notebook APS164_mcorr_Fit_troubleshooting_APS3.ipynb02 February 2021, 22:58:00 UTC
310b21b Asher Preska Steinberg01 February 2021, 22:36:37 UTCAPS164 commit for troubleshooting mcorr-fit; update to match limits of mcorr-fit01 February 2021, 22:36:37 UTC
46d6952 Asher Preska Steinberg01 February 2021, 21:31:17 UTCAPS164 commit for troubleshooting mcorr-fit; update for fitCorr.py script01 February 2021, 21:31:17 UTC
4733a04 Asher Preska Steinberg27 January 2021, 17:30:26 UTCAPS160.5 commit; update to FitCollector package (previously named CollectMcorrFit)27 January 2021, 17:30:26 UTC
cc024a4 Asher Preska Steinberg27 January 2021, 15:41:59 UTCAPS160.5 commit; update to FitCollector package (previously named CollectMcorrFit)27 January 2021, 15:41:59 UTC
8f89e4e Asher Preska Steinberg27 January 2021, 02:17:07 UTCAPS160.5 commit; tweak to results collector and rename of fit-stats to fitCorr27 January 2021, 02:17:07 UTC
717e17e Asher Preska Steinberg26 January 2021, 21:04:18 UTCAPS160.5 commit; tweak to results collector and rename of fit-stats to fitCorr26 January 2021, 21:04:18 UTC
d4a85ef Asher Preska Steinberg26 January 2021, 19:53:51 UTCAPS160.5 commit; suped up results collector26 January 2021, 19:53:51 UTC
08d3e24 Asher Preska Steinberg25 January 2021, 16:56:10 UTCAPS160.5 update to fit-stats package25 January 2021, 16:56:10 UTC
5d5c405 Asher Preska Steinberg23 January 2021, 20:53:21 UTCAPS160.5 fitCollector update for getting number of sequence pairs involved23 January 2021, 20:53:21 UTC
09f1731 Asher Preska Steinberg22 January 2021, 22:36:04 UTCAPS160.5 addition of fitCollector -- just collects the fit from mcorr-fit; no bootstraps22 January 2021, 22:36:04 UTC
71c020c Asher Preska Steinberg22 January 2021, 20:58:45 UTCAPS160.5 addition of fitCollector -- just collects the fit from mcorr-fit; no bootstraps22 January 2021, 20:58:45 UTC
3ae5c08 Asher Preska Steinberg22 January 2021, 16:23:18 UTCAPS160.5 update to getDivergence package to get avg number of alignments used22 January 2021, 16:23:18 UTC
ba3bf76 Asher Preska Steinberg22 January 2021, 16:09:10 UTCAPS160.5 update to getDivergence package to get avg number of alignments used22 January 2021, 16:09:10 UTC
5957fd3 Asher Preska Steinberg22 January 2021, 14:39:50 UTCAPS160.5 tweak to mcorr-fit params22 January 2021, 14:39:50 UTC
4c2133d Asher Preska Steinberg20 January 2021, 22:17:07 UTCAPS160.5 update to getDivergence package; naming tweak20 January 2021, 22:17:07 UTC
32c31e5 Asher Preska Steinberg20 January 2021, 21:52:51 UTCAPS160.5 update to getDivergence package to find clusters where lmfit failed to fit the actual data20 January 2021, 21:52:51 UTC
df23235 Asher Preska Steinberg20 January 2021, 21:17:34 UTCAPS160.5 update to getDivergence package to find clusters where lmfit failed to fit the actual data20 January 2021, 21:17:34 UTC
3c1db0d Asher Preska Steinberg20 January 2021, 18:22:16 UTCAPS160.5 update to mcorr-fit to include "lmfit_report.py" which just fits the data and get goodness of fit report from lmfit20 January 2021, 18:22:16 UTC
5e45de4 Asher Preska Steinberg20 January 2021, 17:57:27 UTCAPS160.5 updates to getDivergence to also collect lmfit goodness of fit stats20 January 2021, 17:57:27 UTC
e9a8599 Asher Preska Steinberg19 January 2021, 23:19:38 UTCAPS160.5 updates to mcorr-fit, additional APS160 commits19 January 2021, 23:19:38 UTC
378012b Asher Preska Steinberg15 January 2021, 17:23:54 UTCSmall tweaks for getDivergence.py15 January 2021, 17:23:54 UTC
0bd4e68 Asher Preska Steinberg14 January 2021, 21:51:54 UTCSmall tweaks for getDivergence.py14 January 2021, 21:51:54 UTC
ec8bbc9 Asher Preska Steinberg14 January 2021, 21:41:33 UTCSmall tweaks for getDivergence.py; APS160 submission scripts14 January 2021, 21:41:33 UTC
cf842e8 Asher Preska Steinberg14 January 2021, 21:30:31 UTCSmall tweaks for getDivergence.py; APS160 submission scripts14 January 2021, 21:30:31 UTC
d166dbe Asher Preska Steinberg14 January 2021, 14:54:57 UTCSmall tweaks for getDivergence.py; submission scripts for APS159 and APS16014 January 2021, 14:54:57 UTC
c511f2d Asher Preska Steinberg09 January 2021, 17:06:29 UTCAPS158.5 commit; small tweaks for getDivergence.py09 January 2021, 17:06:29 UTC
f25d60c Asher Preska Steinberg09 January 2021, 16:44:36 UTCAPS158.5 commit; small tweaks for getDivergence.py09 January 2021, 16:44:36 UTC
1928bb5 Asher Preska Steinberg09 January 2021, 16:27:08 UTCAPS158.5 commit; small tweaks for getDivergence.py09 January 2021, 16:27:08 UTC
a3898a2 Asher Preska Steinberg08 January 2021, 20:53:31 UTCAPS158.5 commit; small tweaks for getDivergence.py and clusterSequences.py08 January 2021, 20:53:31 UTC
d19023a Asher Preska Steinberg08 January 2021, 20:49:55 UTCAPS158.5 commit; small tweaks for getDivergence.py and clusterSequences.py08 January 2021, 20:49:55 UTC
ff07798 Asher Preska Steinberg07 January 2021, 18:46:35 UTCAPS158.5 commit; update for write-cluster-msa for compatability with pangenomealignmentgenerator output07 January 2021, 18:46:35 UTC
350ea8b Asher Preska Steinberg06 January 2021, 17:19:02 UTCAPS158.5 commit; update for clusterSequences.py with more options, better stats output06 January 2021, 17:19:02 UTC
fd96d63 Asher Preska Steinberg06 January 2021, 17:13:07 UTCAPS158.5 commit; update for clusterSequences.py with more options, better stats output06 January 2021, 17:13:07 UTC
b77e291 Asher Preska Steinberg06 January 2021, 16:32:28 UTCAPS158.5 commit; update for clusterSequences.py with more options, better stats output06 January 2021, 16:32:28 UTC
21960eb Asher Preska Steinberg06 January 2021, 16:13:52 UTCAPS158.5 commit; update for clusterSequences.py with more options, better stats output06 January 2021, 16:13:52 UTC
4915b6e Asher Preska Steinberg06 January 2021, 15:33:41 UTCAPS158.5 commit; update for clusterSequences.py with more options, better stats output06 January 2021, 15:33:41 UTC
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