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  • 3f7f610c96
         Update README.md Godwin Ani 2025-03-18 18:56:22 -04:00
  • d459af90b2
         Part 1 docker fike Godwin Ani 2025-03-18 18:29:58 -04:00
  • 58522154b5
         Entrypoint file Godwin Ani 2025-03-18 15:48:51 -04:00
  • a0ede1e06b
         Update wrapper_submit.sh Godwin Ani 2025-03-18 15:35:35 -04:00
  • 0383a3dd99
         Update wrapper_submit.sh Godwin Ani 2025-03-18 15:35:28 -04:00
  • ea87b7dcd6
         Update wrapper.py Godwin Ani 2025-03-18 15:28:55 -04:00
  • b00f272b23
         Update wrapper_submit.sh Godwin Ani 2025-03-17 19:04:26 -04:00
  • 66033ae923
         Update wrapper_submit.sh Godwin Ani 2025-03-17 18:53:21 -04:00
  • 1e258aac5a
         Update wrapper_submit.sh Godwin Ani 2025-03-17 18:44:41 -04:00
  • 3e6c75a9c1
         Update wrapper_submit.sh Godwin Ani 2025-03-17 18:39:43 -04:00
  • 988d17adc1
         Update wrapper_submit.sh Godwin Ani 2025-03-17 18:33:48 -04:00
  • b527661bdb
         Update README.md Godwin Ani 2025-03-14 15:09:06 -04:00
  • 93d166514a
         Update README.md Godwin Ani 2025-03-14 15:07:58 -04:00
  • d330d4dc3e
         Update README.md Godwin Ani 2025-03-14 15:07:43 -04:00
  • 14b0f46c65
         Update README.md Godwin Ani 2025-03-14 15:05:04 -04:00
  • d796ed6bf4
         Update README.md Godwin Ani 2025-03-14 14:59:22 -04:00
  • 44b7c94aba
         Update README.md Godwin Ani 2025-03-14 14:58:36 -04:00
  • f054c8e5a2
         Update README.md Godwin Ani 2025-03-14 14:57:02 -04:00
  • 76bc514ec9
         Add files via upload Godwin Ani 2025-03-14 14:52:41 -04:00
  • 87da279093
         Delete PTL2/Dockerfile Godwin Ani 2025-03-14 14:52:28 -04:00
  • d1b9a64e60
         Update run_eukphylo.sh Adri K. Grow 2025-03-13 17:23:19 -04:00
  • 07131fa94d
         Update trees.py Godwin Ani 2025-03-13 17:21:03 -04:00
  • fe79fc37e5
         Update trimal for docker Godwin Ani 2025-03-11 13:46:09 -04:00
  • 0632b1a14f
         Add files via upload Godwin Ani 2025-03-11 13:23:29 -04:00
  • 0a04332784
         Delete PTL2/Scripts/guidance.py Godwin Ani 2025-03-11 13:23:07 -04:00
  • 125440bc65
         Add files via upload Godwin Ani 2025-03-11 10:11:32 -04:00
  • bad741283f
         Delete PTL2/Scripts/guidance.py Godwin Ani 2025-03-11 10:11:21 -04:00
  • f84fdd3355
         Update guidance.py Godwin Ani 2025-03-10 16:55:03 -04:00
  • 664a1554dc
         Update README.md Godwin Ani 2025-03-05 16:27:12 -05:00
  • 0100ca628f
         Add files via upload Godwin Ani 2025-03-05 16:22:54 -05:00
  • d5dbc9038d
         Delete PTL2/Scripts/guidance.py Godwin Ani 2025-03-05 16:22:34 -05:00
  • 3731c95527
         Update README.md Godwin Ani 2025-03-05 16:12:21 -05:00
  • 7b03c52d21
         Update guidance.py Godwin Ani 2025-03-04 13:37:16 -05:00
  • ed3d53c108
         Update guidance.py Godwin Ani 2025-03-04 13:26:34 -05:00
  • 4d3ca8309c
         Add files via upload Godwin Ani 2025-03-04 13:16:00 -05:00
  • d935a6922a
         Delete PTL2/Scripts/guidance.py Godwin Ani 2025-03-04 13:15:33 -05:00
  • 25690a6ccb
         Update guidance.py Godwin Ani 2025-03-04 12:49:36 -05:00
  • 30b8834605
         Merge pull request #1 from DLBPointon/patch-1 Godwin Ani 2025-02-26 16:36:59 -05:00
  • ab179b5024
         Update run_eukphylo.sh Damon-Lee Pointon 2025-02-25 10:42:59 +00:00
  • 742eb7008a
         Create Dockerfile Damon-Lee Pointon 2025-02-25 10:42:23 +00:00
  • 154f0ffc56
         Update run_eukphylo.sh Damon-Lee Pointon 2025-02-25 10:35:29 +00:00
  • c9d23509ce
         Update README.md Damon-Lee Pointon 2025-02-25 10:26:12 +00:00
  • 05ecacf9b9
         Update run_eukphylo.sh Damon-Lee Pointon 2025-02-25 10:15:05 +00:00
  • 88c166754a
         docker wrapper_submit.sh Godwin Ani 2025-02-24 11:28:38 -05:00
  • 6924789f0f
         docker wrapper_submit.sh Godwin Ani 2025-02-24 11:27:06 -05:00
  • e9d37afe43
         docker run_eukphylo.sh Godwin Ani 2025-02-24 11:25:33 -05:00
  • 6ff435291c
         Update wrapper_submit.sh Adri K. Grow 2025-02-18 16:29:05 -05:00
  • 030401e9b0
         Update guidance.py Adri K. Grow 2025-02-14 13:57:57 -05:00
  • e3d215c7e9
         Update wrapper_submit.sh Adri K. Grow 2025-02-13 18:22:03 -05:00
  • feab503fb6
         Update run_eukphylo.sh Adri K. Grow 2025-02-13 18:16:29 -05:00
  • d4f27a3032
         Update run_eukphylo.sh Adri K. Grow 2025-02-13 18:01:48 -05:00
  • 1aebef4725
         Delete Utilities/For_Assemblies/ProcessAndRenamePlateTranscripts.py Adri K. Grow 2025-02-13 16:30:03 -05:00
  • dfd826ee94
         Add files via upload Adri K. Grow 2025-02-13 16:29:13 -05:00
  • 45de3036c9
         Update ShortenTips.py Godwin Ani 2025-02-04 18:59:31 -05:00
  • 7e9b90c79b
         Shorten tree tip names Godwin Ani 2025-02-04 18:58:53 -05:00
  • 5284a71ce8
         Updating headers and example commands in wrapper_submit.sh Auden Cote-L'Heureux 2025-01-22 12:56:11 -05:00
  • 4f033e8ab2
         Updating header and example runs in wrapper_submit.sh Auden Cote-L'Heureux 2025-01-22 12:51:10 -05:00
  • a559f61567
         Generalizing and adding examples to run_eukphylo.sh Auden Cote-L'Heureux 2025-01-22 12:28:04 -05:00
  • fc190415ee
         Updating headers in utils.py Auden Cote-L'Heureux 2025-01-19 11:09:21 -05:00
  • 743d650b74
         updating header in trees.py Auden Cote-L'Heureux 2025-01-19 11:08:08 -05:00
  • 676a11a287
         updating header in preguidance.py Auden Cote-L'Heureux 2025-01-19 11:07:49 -05:00
  • 0df7470b92
         updating header in guidance.py Auden Cote-L'Heureux 2025-01-19 11:07:25 -05:00
  • 3dc60dcd2e
         updating header in concatenate.py Auden Cote-L'Heureux 2025-01-19 11:06:23 -05:00
  • 8d48e65b7f
         updating header in wrapper.py Auden Cote-L'Heureux 2025-01-19 11:05:28 -05:00
  • 0ac714a63b
         updating header in CheckSetup.py Auden Cote-L'Heureux 2025-01-19 11:04:59 -05:00
  • 7348c7445f
         updating header in CUB.py Auden Cote-L'Heureux 2025-01-19 11:04:41 -05:00
  • 3ac37547b7
         updating header in 7b_SummaryStats.py Auden Cote-L'Heureux 2025-01-19 11:04:02 -05:00
  • de566bf546
         updating header in 7a_FinalizeName.py Auden Cote-L'Heureux 2025-01-19 11:03:31 -05:00
  • db22976d3c
         Updating header in 6_FilterPartials.py Auden Cote-L'Heureux 2025-01-19 11:02:43 -05:00
  • a9a151eeb3
         updating header in 5_GCodeTranslate.py Auden Cote-L'Heureux 2025-01-19 11:02:24 -05:00
  • 41223ec75c
         updating header in 4_InFrameStopCodonEstimator.py Auden Cote-L'Heureux 2025-01-19 11:00:24 -05:00
  • 97da58aaf0
         updating header in 3_AssignOGs.py Auden Cote-L'Heureux 2025-01-19 11:00:00 -05:00
  • ee7dce1af7
         updating header in 2b_Identify_Proks.py Auden Cote-L'Heureux 2025-01-19 10:59:34 -05:00
  • b61eb8be1b
         Updating header in 2a_Identify_rRNA.py Auden Cote-L'Heureux 2025-01-19 10:59:10 -05:00
  • ea96ad0fe4
         Updating header in 1b_CrossPlateContamination.py Auden Cote-L'Heureux 2025-01-19 10:58:09 -05:00
  • 1d7749b3a6
         Updating header in 1a_TranscriptLengthFilter.py Auden Cote-L'Heureux 2025-01-19 10:57:44 -05:00
  • 375bfef45e
         Updating header wrapper.py Auden Cote-L'Heureux 2025-01-19 10:55:37 -05:00
  • f5bb221378
         Updating header in CheckSetup.py Auden Cote-L'Heureux 2025-01-19 10:54:49 -05:00
  • 31d0a8ddb2
         Update CUB.py Katzlab 2025-01-19 10:54:01 -05:00
  • 3491166695
         Update 5b_SummaryStats.py Katzlab 2025-01-19 10:51:39 -05:00
  • cd226beb9c
         Update 4_CountOGsDiamond.py Katzlab 2025-01-19 10:49:41 -05:00
  • 10a8c2f78a
         Notes in run_eukphylo.sh, further updates needed Auden Cote-L'Heureux 2025-01-19 10:27:34 -05:00
  • 2173eda5a0
         Update run_eukphylo.sh Auden Cote-L'Heureux 2025-01-17 10:34:37 -05:00
  • 60b0f9a9b4
         Update contamination.py Auden Cote-L'Heureux 2025-01-17 10:16:55 -05:00
  • bd72ed3a43
         Update and rename phylotol.py to eukphylo.py Auden Cote-L'Heureux 2025-01-17 10:16:27 -05:00
  • 0fbd2ae863
         Rename run_phylotol.sh to run_eukphylo.sh Auden Cote-L'Heureux 2025-01-17 10:16:01 -05:00
  • 19943a13fd
         Delete PTL1_gene_families Auden Cote-L'Heureux 2025-01-17 10:03:53 -05:00
  • 04fe7029d2
         Changing to use EukPhylo Auden Cote-L'Heureux 2025-01-17 09:50:54 -05:00
  • fe7ef7b71a
         Update and rename ProcessAndRenamePlateTranscripts_AKG.py to ProcessAndRenamePlateTranscripts.py Adri K. Grow 2025-01-15 11:25:16 -05:00
  • 2ad02897c8
         Add files via upload Adri K. Grow 2025-01-15 11:22:39 -05:00
  • eb9e81f4c0
         adding iqtree-fast Auden Cote-L'Heureux 2025-01-12 12:35:53 -05:00
  • 4f5bce5963
         Update utils.py Auden Cote-L'Heureux 2025-01-12 12:35:05 -05:00
  • d595a51b4f
         adding 'allow_large_files' flag Auden Cote-L'Heureux 2025-01-09 12:20:59 -05:00
  • 31a9295485
         Adding flag for large files to guidance.py Auden Cote-L'Heureux 2025-01-09 12:19:51 -05:00
  • 733851b957
         Adding trimal cutoff as parameter Auden Cote-L'Heureux 2025-01-09 12:11:54 -05:00
  • c0dfdb6248
         Adding trimal cutoff as parameter Auden Cote-L'Heureux 2025-01-09 12:11:10 -05:00
  • baf5fd037d
         Adding TrimAl cutoff as parameter Auden Cote-L'Heureux 2025-01-09 12:09:36 -05:00
  • 1e543b3989
         Adding TPM calculating script (Salmon) Auden Cote-L'Heureux 2025-01-09 12:06:10 -05:00
  • a8a2a5ff2d
         Moving CountTaxonOccurence.py Auden Cote-L'Heureux 2025-01-08 10:38:23 -05:00
  • 1c309f8e10
         Update ReadMapping.py Adri K. Grow 2024-12-06 12:20:50 -05:00