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Author	SHA1	Message	Date
Auden Cote-L'Heureux	18f4686223	Fixing underscore/dot issue in trees.py	2024-04-15 16:25:32 -04:00
ElinorSterner	a1d92144e4	Update README.md ... updated the lab logo	2024-04-14 16:55:19 -04:00
Godwin Ani	2f67243515	Add files via upload	2024-04-11 14:43:53 -04:00
Godwin Ani	8b35b8a64d	Update CladeGrabbing_v3.2.py	2024-04-05 13:14:14 -04:00
Godwin Ani	5bdd2730bf	Rename CladeGrabbing_v2.1.py to CladeGrabbing_v3.2.py	2024-04-05 13:14:03 -04:00
Godwin Ani	e2134d08a3	New version	2024-04-05 13:13:23 -04:00
Godwin Ani	3f8bc48a3f	Update ColorByClade_v2.2.py	2024-04-01 11:11:06 -04:00
Godwin Ani	a59cbe1102	ColorByClade_v2.1.py to ColorByClade_v2.2.py	2024-04-01 11:10:18 -04:00
Godwin Ani	81a46d2714	Cannot set myself as outgroup catch	2024-04-01 11:09:45 -04:00
Godwin Ani	21e54ab7e4	Reverting to previous version	2024-04-01 11:04:37 -04:00
Godwin Ani	13e6d300c5	Adding keep_iter parameter	2024-03-22 15:07:25 -04:00
Godwin Ani	80ad29e6d5	Adding keep_iter parameter	2024-03-22 15:05:54 -04:00
Godwin Ani	f40873b6b0	Update GuidanceWrapper_v2.1.py	2024-03-19 13:26:41 -04:00
Godwin Ani	06ba70c0f7	Update Iteration parameter	2024-03-19 10:31:59 -04:00
Godwin Ani	b91cf0fb63	Iterations parameter added	2024-03-19 10:29:41 -04:00
Auden Cote-L'Heureux	b8a68098f3	Fixing assembled transcript overwrite issue in 7b	2024-03-18 10:16:31 -04:00
Auden Cote-L'Heureux	1dcb7f05dd	Delete PTL1/Transcriptomes/Scripts/7b_SummaryStats.py	2024-03-18 10:15:58 -04:00
Adri K. Grow	e87a10ad9b	Add files via upload	2024-03-15 11:35:33 -04:00
Adri K. Grow	97b9c8ee67	Delete Utilities/for_taxonomy/ReadMapping_v2.0.py	2024-03-15 11:35:18 -04:00
Adri K. Grow	87840891d6	Add files via upload	2024-03-09 11:06:45 -05:00
Adri K. Grow	ce0649bf14	Delete PTL2/run_phylotol.sh	2024-03-09 11:05:59 -05:00
Katzlab	ca23f3f789	Update ColorByClade_v2.1.py ... undoing "fix" that was meant to allow you to color trees twice...	2024-02-20 16:48:44 -05:00
Auden Cote-L'Heureux	93b328306a	Halfway done with fix to wrapper.py	2024-02-16 14:10:14 -05:00
Auden Cote-L'Heureux	384dd72125	Adding check to 4_InFrameStopCodonEstimator.py	2024-02-16 14:06:06 -05:00
Auden Cote-L'Heureux	7ca7e378bc	Update ColorByClade_v2.1.py	2024-02-16 08:37:20 -05:00
Katzlab	710927f5fc	Update CladeGrabbing_v2.1.py	2024-02-14 17:46:48 -05:00
Auden Cote-L'Heureux	75b06a788e	annotating concatenate.py	2024-02-07 12:52:47 -05:00
Auden Cote-L'Heureux	920b3b4ad4	annotating contamination.py	2024-02-07 12:48:38 -05:00
Auden Cote-L'Heureux	23b81f83f7	annotating trees.py	2024-02-07 12:30:22 -05:00
Auden Cote-L'Heureux	7220b81402	annotating guidance.py	2024-02-07 12:18:46 -05:00
Auden Cote-L'Heureux	80409a22ff	annotating preguidance.py	2024-02-07 12:04:30 -05:00
Auden Cote-L'Heureux	c00780e313	annotating phylotol.py	2024-02-07 11:52:42 -05:00
Auden Cote-L'Heureux	c308864f5c	annotating utils.py	2024-02-07 11:52:08 -05:00
Auden Cote-L'Heureux	b7a3d1ac12	annotating phylotol.py	2024-02-07 11:46:40 -05:00
Auden Cote-L'Heureux	0a7ab708b9	Updating contamination loop parameters in utils.py	2024-02-07 11:36:45 -05:00
Auden Cote-L'Heureux	877aabd2ef	adding contamination loop back to wrapper	2024-02-07 11:31:03 -05:00
Auden Cote-L'Heureux	0f2ae76d13	exiting after errors in guidance.py	2024-02-07 11:30:26 -05:00
Auden Cote-L'Heureux	b981641f62	removing calls to logger in trees.py	2024-02-07 11:29:55 -05:00
Auden Cote-L'Heureux	556b8646ba	removing calls to logger in guidance.py	2024-02-07 11:28:07 -05:00
Auden Cote-L'Heureux	604a4af182	Delete PTL2/Scripts/logger.py	2024-02-07 11:25:06 -05:00
Auden Cote-L'Heureux	fff0032c0d	num_contams to float for proportional running contamination.py	2024-02-07 11:24:54 -05:00
Auden Cote-L'Heureux	9844842aed	Add files via upload	2024-02-07 11:23:49 -05:00
Godwin Ani	00ee7e44b3	Rename Plotcomps_speciesName_v1.0.R to Plotcomps_SppName_v1.0.R	2024-02-05 14:22:29 -05:00
Godwin Ani	f71f07a313	Rename Plotcomps_speciesName.R to Plotcomps_speciesName_v1.0.R	2024-02-05 14:21:59 -05:00
Godwin Ani	7865b6dfe7	Add files via upload	2024-02-05 14:19:00 -05:00
Godwin Ani	f6cb9e95ff	Update CountTaxonOccurence_v2.0.py	2024-02-05 13:53:22 -05:00
Godwin Ani	ded4143f11	Rename CladeSizes_v3.0.py to CladeSizes_v2.0.py	2024-02-05 13:51:38 -05:00
Godwin Ani	8be57a0231	SharedOGs_v1.0.py	2024-02-05 13:49:10 -05:00
Godwin Ani	b6744e0f78	Update SharedOGs_v1.0.py	2024-02-05 13:48:49 -05:00
Godwin Ani	4ae1382815	Update Cluster_v2.0.py	2024-02-05 13:25:11 -05:00