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start [2025/08/18 13:34] – [Gene Prediction] 134.190.145.228start [2026/03/09 13:08] (current) – [Protein structure prediction] 172.20.112.81
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 [[ RAM and ROM|RAM and CPU memory - Perun Queues ]] [[ RAM and ROM|RAM and CPU memory - Perun Queues ]]
 +
 +[[ GPU nodes and how to work with them|GPU nodes and how to work with them ]]
  
 [[ Perun and Environments|Perun and Environments ]] [[ Perun and Environments|Perun and Environments ]]
 +
 +[[ Perun and Custom Environments|Perun and Custom Environments ]]
  
 [[ GitHub repositories of the lab|GitHub repositories of the lab ]] [[ GitHub repositories of the lab|GitHub repositories of the lab ]]
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 [[gene_prediction_just_augustus|[Ab initio] Gene prediction with just Augustus]] [[gene_prediction_just_augustus|[Ab initio] Gene prediction with just Augustus]]
 +
 +[[gene_prediction_find_supported_orfs|[RNAseq-informed] Gene prediction with find_supported_orfs.py]]
  
 [[gene_prediction_with_braker2_pipeline|[Pipeline] Gene prediction with Braker2]] [[gene_prediction_with_braker2_pipeline|[Pipeline] Gene prediction with Braker2]]
  
 [[gene_prediction_with_funannotate|[Pipeline] Gene prediction with the Funannotate]] [[gene_prediction_with_funannotate|[Pipeline] Gene prediction with the Funannotate]]
- 
- 
-[[gene_prediction_find_supported_orfs|[RNAseq-informed] Gene prediction with find_supported_orfs.py]] 
- 
  
 [[automatically_fixing_gene_models|[Fix] Improving gene models with fix_genes_with_false_introns.py]] [[automatically_fixing_gene_models|[Fix] Improving gene models with fix_genes_with_false_introns.py]]
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 [[Dayana Salas - Utility scripts(taxonomy, coloring trees, phylogenetics, mixture models, domain architecture and more)]] [[Dayana Salas - Utility scripts(taxonomy, coloring trees, phylogenetics, mixture models, domain architecture and more)]]
  
 +====Protein structure prediction====
 +
 +[[Running AlphaFold at scale]]
 ====Phylogenetic analyses==== ====Phylogenetic analyses====
  
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