User contributions for Jordan

10:1010:10, 15 January 2025 diff hist +278‎ AlphaFold3-Sapelo2 ‎ Updated the list of available Singularity containers to reflect the "CCDpatched" version that was built and deployed on 01/13/2025 to address some problems that a user ran into while trying to work on a protein with multiple ligands. current Tag: Visual edit

18:1518:15, 26 November 2024 diff hist +384‎ AlphaFold3-Sapelo2 ‎ Added a note about run times and queuing times.
12:3812:38, 26 November 2024 diff hist +246‎ AlphaFold3-Sapelo2 ‎No edit summary
12:1212:12, 26 November 2024 diff hist +4‎ m AlphaFold-Sapelo2 ‎No edit summary current
12:1012:10, 26 November 2024 diff hist +1‎ m AlphaFold3-Sapelo2 ‎No edit summary
12:0512:05, 26 November 2024 diff hist +54‎ m AlphaFold3-Sapelo2 ‎No edit summary
12:0512:05, 26 November 2024 diff hist +500‎ AlphaFold3-Sapelo2 ‎No edit summary
12:0012:00, 26 November 2024 diff hist +11,584‎ N AlphaFold3-Sapelo2 ‎ Created 11/26/2024 for the new deployment of AlphaFold3.
11:1311:13, 26 November 2024 diff hist +196‎ Software ‎No edit summary current

13:4313:43, 1 November 2024 diff hist 0‎ BLAST Databases-Sapelo2 ‎ Updated to reflect the new version of the databases created on 11/01/2024 current Tag: Visual edit

09:0009:00, 22 October 2024 diff hist −8‎ RAxML-NG-Sapelo2 ‎ There was still a reference to using an "MPI version" even though we don't have an MPI version of this software installed. current Tag: Visual edit

15:1915:19, 2 August 2024 diff hist +1‎ m BLAST Databases-Sapelo2 ‎No edit summary
15:1515:15, 2 August 2024 diff hist −4‎ m NCBI Fasta-Sapelo2 ‎No edit summary current
15:1515:15, 2 August 2024 diff hist +331‎ BLAST Databases-Sapelo2 ‎ Updated the list of available datasets that came with the download on 08/02/2024
15:0515:05, 2 August 2024 diff hist +156‎ NCBI Fasta-Sapelo2 ‎ Clarified that NCBI is ending FASTA availability and that we are no longer updating this.
14:3114:31, 2 August 2024 diff hist −17‎ Bioinformatics Databases ‎ →‎Installed Bioinformatics Databases Tag: Visual edit

10:3910:39, 1 July 2024 diff hist +10,239‎ N RAxML-NG-Sapelo2 ‎ Created page with "Category:Sapelo2 Category:Software Category:Bioinformatics === Category === Bioinformatics === Program On === Sapelo2 === Version === 1.2.2 ===Author / Distributor=== Alexey M. Kozlov and Alexandros Stamatakis ===Description=== RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion. Its search heuristic is based on iteratively performing a series of Subtree Pruning and Regrafting (SPR) moves, which allows to qu..."
10:2410:24, 1 July 2024 diff hist −5‎ Software ‎No edit summary

11:2411:24, 24 June 2024 diff hist +925‎ OrthoFinder-Sapelo2 ‎ Updated to reflect that necessary (default) tools are included in OrthoFinder/2.5.5-foss-2022a. Will update further when OrthoFinder/2.5.5-foss-2023a has been fixed. current

15:5415:54, 14 June 2024 diff hist −36‎ m BRAKER-Sapelo2 ‎No edit summary current
13:2213:22, 14 June 2024 diff hist −503‎ BRAKER-Sapelo2 ‎ Updated to reflect that all necessary tools (including ProtHint and TSEBRA) are now included in BRAKER/3.0.8-foss-2022a
09:3909:39, 14 June 2024 diff hist −214‎ BRAKER-Sapelo2 ‎ Revised the recommendations regarding TSEBRA, it turns out that this actually does get loaded with the two foss-2022a modules for v3.0.3

12:5512:55, 13 June 2024 diff hist +33‎ BRAKER-Sapelo2 ‎No edit summary
12:5412:54, 13 June 2024 diff hist −3‎ m BRAKER-Sapelo2 ‎ Fixed typos.
11:0411:04, 13 June 2024 diff hist +4‎ BRAKER-Sapelo2 ‎No edit summary
11:0311:03, 13 June 2024 diff hist +32,104‎ N BRAKER-Sapelo2 ‎ Created page with "Category:Sapelo2 Category:Software Category:Bioinformatics === Category === Bioinformatics === Program On === Sapelo2 === Version === 2.1.6, 3.0.3, 3.0.8 === Author / Distributor === [https://github.com/Gaius-Augustus/BRAKER Gaius-Augustus] === Description === "BRAKER is a pipeline for fully automated prediction of protein coding genes with GeneMark-ES/ET and AUGUSTUS in novel eukaryotic genomes." More details are at [https://github.com/Gaius-Augustus/B..."

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