134 Commits

Author	SHA1	Message	Date
Godwin Ani	76bc514ec9	Add files via upload	2025-03-14 14:52:41 -04:00
Godwin Ani	87da279093	Delete PTL2/Dockerfile	2025-03-14 14:52:28 -04:00
Godwin Ani	07131fa94d	Update trees.py	2025-03-13 17:21:03 -04:00
Godwin Ani	fe79fc37e5	Update trimal for docker	2025-03-11 13:46:09 -04:00
Godwin Ani	0632b1a14f	Add files via upload	2025-03-11 13:23:29 -04:00
Godwin Ani	0a04332784	Delete PTL2/Scripts/guidance.py	2025-03-11 13:23:07 -04:00
Godwin Ani	125440bc65	Add files via upload	2025-03-11 10:11:32 -04:00
Godwin Ani	bad741283f	Delete PTL2/Scripts/guidance.py	2025-03-11 10:11:21 -04:00
Godwin Ani	f84fdd3355	Update guidance.py	2025-03-10 16:55:03 -04:00
Godwin Ani	0100ca628f	Add files via upload	2025-03-05 16:22:54 -05:00
Godwin Ani	d5dbc9038d	Delete PTL2/Scripts/guidance.py	2025-03-05 16:22:34 -05:00
Godwin Ani	7b03c52d21	Update guidance.py	2025-03-04 13:37:16 -05:00
Godwin Ani	ed3d53c108	Update guidance.py	2025-03-04 13:26:34 -05:00
Godwin Ani	4d3ca8309c	Add files via upload	2025-03-04 13:16:00 -05:00
Godwin Ani	d935a6922a	Delete PTL2/Scripts/guidance.py	2025-03-04 13:15:33 -05:00
Godwin Ani	25690a6ccb	Update guidance.py	2025-03-04 12:49:36 -05:00
Damon-Lee Pointon	ab179b5024	Update run_eukphylo.sh ... a lowly `/` was missing	2025-02-25 10:42:59 +00:00
Damon-Lee Pointon	742eb7008a	Create Dockerfile	2025-02-25 10:42:23 +00:00
Damon-Lee Pointon	154f0ffc56	Update run_eukphylo.sh ... Updating Path var	2025-02-25 10:35:29 +00:00
Damon-Lee Pointon	05ecacf9b9	Update run_eukphylo.sh ... Added in the variables to the script to increase configurability.	2025-02-25 10:15:05 +00:00
Godwin Ani	e9d37afe43	docker run_eukphylo.sh	2025-02-24 11:25:33 -05:00
Adri K. Grow	030401e9b0	Update guidance.py	2025-02-14 13:57:57 -05:00
Adri K. Grow	feab503fb6	Update run_eukphylo.sh	2025-02-13 18:16:29 -05:00
Adri K. Grow	d4f27a3032	Update run_eukphylo.sh	2025-02-13 18:01:48 -05:00
Auden Cote-L'Heureux	a559f61567	Generalizing and adding examples to run_eukphylo.sh	2025-01-22 12:28:04 -05:00
Auden Cote-L'Heureux	fc190415ee	Updating headers in utils.py	2025-01-19 11:09:21 -05:00
Auden Cote-L'Heureux	743d650b74	updating header in trees.py	2025-01-19 11:08:08 -05:00
Auden Cote-L'Heureux	676a11a287	updating header in preguidance.py	2025-01-19 11:07:49 -05:00
Auden Cote-L'Heureux	0df7470b92	updating header in guidance.py	2025-01-19 11:07:25 -05:00
Auden Cote-L'Heureux	3dc60dcd2e	updating header in concatenate.py	2025-01-19 11:06:23 -05:00
Auden Cote-L'Heureux	10a8c2f78a	Notes in run_eukphylo.sh, further updates needed	2025-01-19 10:27:34 -05:00
Auden Cote-L'Heureux	2173eda5a0	Update run_eukphylo.sh	2025-01-17 10:34:37 -05:00
Auden Cote-L'Heureux	60b0f9a9b4	Update contamination.py	2025-01-17 10:16:55 -05:00
Auden Cote-L'Heureux	bd72ed3a43	Update and rename phylotol.py to eukphylo.py	2025-01-17 10:16:27 -05:00
Auden Cote-L'Heureux	0fbd2ae863	Rename run_phylotol.sh to run_eukphylo.sh	2025-01-17 10:16:01 -05:00
Auden Cote-L'Heureux	eb9e81f4c0	adding iqtree-fast	2025-01-12 12:35:53 -05:00
Auden Cote-L'Heureux	4f5bce5963	Update utils.py	2025-01-12 12:35:05 -05:00
Auden Cote-L'Heureux	d595a51b4f	adding 'allow_large_files' flag	2025-01-09 12:20:59 -05:00
Auden Cote-L'Heureux	31a9295485	Adding flag for large files to guidance.py	2025-01-09 12:19:51 -05:00
Auden Cote-L'Heureux	733851b957	Adding trimal cutoff as parameter	2025-01-09 12:11:54 -05:00
Auden Cote-L'Heureux	c0dfdb6248	Adding trimal cutoff as parameter	2025-01-09 12:11:10 -05:00
Auden Cote-L'Heureux	baf5fd037d	Adding TrimAl cutoff as parameter	2025-01-09 12:09:36 -05:00
Adri K. Grow	61f808343f	Update run_phylotol.sh	2024-11-26 13:04:53 -05:00
Godwin Ani	22eb559650	Update run_phylotol.sh	2024-11-12 09:01:44 -05:00
Godwin Ani	f2701e7f65	Update run_phylotol.sh	2024-11-11 17:01:32 -05:00
Katzlab	d7f02a243c	Fixing concat_target_taxa file read error in concatenation	2024-08-26 15:56:42 -04:00
Katzlab	4b8a3fbe64	Delete PTL2/Scripts/utils.py	2024-08-26 15:56:15 -04:00
Katzlab	c4aab9eaef	Delete PTL2/Scripts/concatenate.py	2024-08-26 15:56:09 -04:00
Katzlab	7904ec8b35	Fixing concat taxon list read error	2024-08-22 11:59:58 -04:00
Katzlab	41cc1354b3	Fixing taxon list read error in concatenate.py	2024-08-22 11:59:38 -04:00