{"count":149,"next":null,"previous":"https://catalogue.france-bioinformatique.fr/api/trainingmaterial/?format=json&limit=20&offset=120&ordering=-providedBy","results":[{"id":146,"name":"Processing large files with sed awk  - Genotoul-bioinfo","description":"This “Sed and AWK to modify large text files” training session is organized by the Genotoul bioinfo platform.\r\n\r\nThe Linux sed command is a powerful and very fast text editor without an interface. Sed can select, substitute, add, delete, and modify text in files and streams. Sed relies heavily on regular expressions for pattern matching and text selection. We’ll manipulate regexes and the sed command to modify and filter several type of file often used in bioinformatics.\r\n\r\nAWK enables to easily process columns in large text files but is also a quite powerfull programming language. This training session aims at introducing you AWK principles. You will learn about variables, operators and functions useful to manipulate very large files. \r\n\r\nFor example you can use AWK to generate your unix command lines to be launched on the cluster. AWK enables to process millions of lines in text files. The course includes short feature presentations between long hands-on sessions in which you will be able to understand the global ideas as well as details.","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://web-genobioinfo.toulouse.inrae.fr/~klopp/SedAwk2024/Processing_large_files_with_sed_awk_2024.pdf","fileName":"Processing_large_files_with_sed_awk_2024.pdf","topics":["http://edamontology.org/topic_3316"],"keywords":["Programming Languages & Computer Sciences"],"audienceTypes":["Professional (continued)"],"audienceRoles":["Biologists","Bioinformaticians"],"difficultyLevel":"Intermediate","providedBy":[{"id":22,"name":"Genotoul-bioinfo","url":"https://catalogue.france-bioinformatique.fr/api/team/Genotoul-bioinfo/?format=json"}],"dateCreation":null,"dateUpdate":"2024-03-01","licence":null,"maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/300/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/739/?format=json"]},{"id":139,"name":"Cluster Slides - Genotoul-bioinfo","description":"Slides for Cluster training (bioinfo genotoul facility)\r\nThis training session is organized by the Genotoul bioinfo platform and aims at learning sequence analysis. This training session has been designed so you can deal with the platform resources and its organization. You will learn to deal with the platform compute cluster and data banks. You will launch your first processing batch on the cluster and will learn how to track and manage them. The objective of this training is to learn you how to use computing ressources from GenoToul Bioinfo cluster (submit, manage & monitor jobs).","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://bioinfo.genotoul.fr/wp-content/uploads/Formation_cluster_SLURM_2025.pdf","fileName":"Formation_cluster_SLURM_2025.pdf","topics":[],"keywords":["Cluster"],"audienceTypes":[],"audienceRoles":[],"difficultyLevel":"Novice","providedBy":[{"id":22,"name":"Genotoul-bioinfo","url":"https://catalogue.france-bioinformatique.fr/api/team/Genotoul-bioinfo/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":"CC BY-NC-SA","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/300/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/739/?format=json"]},{"id":141,"name":"Sed and awk training - Genotoul-bioinfo","description":"training material sed and awk training (genotoul bioinfo facility)","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://genoweb.toulouse.inra.fr/~klopp/SedAwk2024/Processing_large_files_with_sed_awk_2024.pdf","fileName":"Processing_large_files_with_sed_awk_2024.pdf","topics":["http://edamontology.org/topic_3316"],"keywords":["Programming Languages & Computer Sciences"],"audienceTypes":[],"audienceRoles":[],"difficultyLevel":"Intermediate","providedBy":[{"id":22,"name":"Genotoul-bioinfo","url":"https://catalogue.france-bioinformatique.fr/api/team/Genotoul-bioinfo/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":"Creative Commons Attribution 4.0 International License","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/300/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/739/?format=json"]},{"id":143,"name":"Workflows nf-core - Genotoul-bioinfo","description":"Tutorial to launch and configure nf-core workflows on genotoul bioinfo cluster.\r\nThis training session is organized by the Genotoul bioinfo platform and aims at learning nf-core workflow submission, error understanding, resuming jobs and ressource reservation. We will present and practice:\r\n\r\nthe Nextflow software\r\nthe nf-core community and pipelines\r\nWhat is a singularity image ?\r\nWhere are installed the nf-core workflows ? Which version do I use ?\r\nHow to run a workflow and which config file is used ?\r\nWhich kind of error I can get ?\r\nHow to resume failed jobs?\r\nHow to handle genome indexes ?\r\nHow to monitor my process and then well configure my workflow ?\r\nHow do you best adjust CPU and RAM reservations?\r\nThis is NOT a bioinformatic training on a particular workflow or a training on how to develop a workflow.","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://genotoul-bioinfo.pages.mia.inra.fr/use-nextflow-nfcore-course/","fileName":"use-nextflow-nfcore-course","topics":["http://edamontology.org/topic_0769"],"keywords":["Nextflow"],"audienceTypes":["Professional (continued)"],"audienceRoles":["Life scientists"],"difficultyLevel":"Novice","providedBy":[{"id":22,"name":"Genotoul-bioinfo","url":"https://catalogue.france-bioinformatique.fr/api/team/Genotoul-bioinfo/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":"CC BY-NC-SA","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/300/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/739/?format=json"]},{"id":142,"name":"Introduction to python - Genotoul-bioinfo","description":"Training slides (theory and exercises).\r\nThe Toulouse Genotoul bioinformatics platform, organizes a 2 days long training course for non computer scientist and biologists aiming at learning the foundation of Python programming. In this training you will learn the basics of programming (variables, functions, control structures such as “if” condition, “for” loop”), writing simple programs which read files, and write results to others. The training course does not require any knowledge in programming, but basic Linux/bash commands are required (cd, ls).","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training-python-for-biology-genotoul-bioinfo-a77c191514cdd1dc1b.pages.mia.inra.fr/#/title-slide","fileName":"training-python-for-biology","topics":["http://edamontology.org/topic_3316"],"keywords":["Python Language"],"audienceTypes":["Professional (continued)"],"audienceRoles":["Life scientists"],"difficultyLevel":"Novice","providedBy":[{"id":22,"name":"Genotoul-bioinfo","url":"https://catalogue.france-bioinformatique.fr/api/team/Genotoul-bioinfo/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":"Creative Commons Attribution 4.0 International License","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/300/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/739/?format=json"]},{"id":140,"name":"Cluster TP - Genotoul-bioinfo","description":"TP for cluster training (bioinfo genotoul facility)\r\nThis training session is organized by the Genotoul bioinfo platform and aims at learning sequence analysis. This training session has been designed so you can deal with the platform resources and its organization. You will learn to deal with the platform compute cluster and data banks. You will launch your first processing batch on the cluster and will learn how to track and manage them. The objective of this training is to learn you how to use computing ressources from GenoToul Bioinfo cluster (submit, manage & monitor jobs).","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://genotoul-bioinfo.pages-forge.inrae.fr/linux-cluster/","fileName":"linux-cluster","topics":["http://edamontology.org/topic_3316"],"keywords":["High performance computing","Cluster"],"audienceTypes":[],"audienceRoles":[],"difficultyLevel":"Novice","providedBy":[{"id":22,"name":"Genotoul-bioinfo","url":"https://catalogue.france-bioinformatique.fr/api/team/Genotoul-bioinfo/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":"CC BY-NC-SA","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/300/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/739/?format=json"]},{"id":92,"name":"HOVERGEN tutorial","description":"HOVERGEN is a database containing homologous vertebrate protein and nucleotide sequences. It allows to easily select similar gene sequences from a wide range of vertebrates. Hence it becomes particularly useful in comparative genomics, phylogeny and evolutionary studies on a molecular level. HOVERGEN Clean contains only complete sequences which reattach to their family. Hence its library is smaller, but more reliable.\n","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"http://www.prabi.fr/spip.php?article58","fileName":"missing.txt","topics":[],"keywords":["genomics","proteomics"],"audienceTypes":[],"audienceRoles":[],"difficultyLevel":"","providedBy":[{"id":19,"name":"PRABI-AMSB","url":"https://catalogue.france-bioinformatique.fr/api/team/PRABI-AMSB/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":null,"maintainers":[]},{"id":91,"name":"A Simple Phylogenetic Tree Construction (part 1)","description":"Understand the method behind constructing a phylogenetic tree from the search for sequences to the analysis of the tree.\nGet to grips with various bio-informatic software (BLAST, CLUSTALw, SeaView and Phylo_win).\n","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"http://www.prabi.fr/spip.php?article59","fileName":"missing.txt","topics":[],"keywords":["Phylogenetics"],"audienceTypes":[],"audienceRoles":[],"difficultyLevel":"","providedBy":[{"id":19,"name":"PRABI-AMSB","url":"https://catalogue.france-bioinformatique.fr/api/team/PRABI-AMSB/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":null,"maintainers":[]},{"id":90,"name":"A Simple Phylogenetic Tree Construction (part 2)","description":"Understand the method used in identifying an unknown sequence.\nUnderstand the limitations of this method\nGet to grips with various software (CLUSTALw, SeaView, Phylo_win and Njplot)\n","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"http://www.prabi.fr/spip.php?article60","fileName":"missing.txt","topics":[],"keywords":["Phylogenetics"],"audienceTypes":[],"audienceRoles":[],"difficultyLevel":"","providedBy":[{"id":19,"name":"PRABI-AMSB","url":"https://catalogue.france-bioinformatique.fr/api/team/PRABI-AMSB/?format=json"}],"dateCreation":null,"dateUpdate":null,"licence":null,"maintainers":[]}]}