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Splitting and grouping side quest (nextflow-io#595) * First draft of splitting and grouping side quest First draft of a splitting and grouping side quest. This includes separating samples using filter, then grouping and spreading by intervals. Early version but introduces key operator concepts to participants. * Spread over intervals prior to grouping This commit reverses the order to spread over intervals prior to grouping. This achieves two things: 1. It explains everything once and only once to make the tutorial simpler 2. It provides a real world reason for using groupTuple This makes the flow of the tutorial easier to understand, at the cost of very verbose outputs. * add splitting and grouping to nav bar * Add before/after to first code change * Add ch_* prefix to all channels for clarity over objects * Remove "pipeline" from opening statement to focus on channels * Add "you will" statement to the beginning of the tutorial * Fix typo and phrasing about combining * Refine explanation of intervals and the combining method * add another before/after snippet * Use single BAM as input file * Remove dump from tutorial to simplify and focus splitting-grouping and not debugging * Update samplesheet * fixup: Remove TODO * Finish with a section on flattening the data to close out grouping * revert main.nf * Sort out notes * Re-order side quests slightly for more logical order, from least to most complex * remove intervals file * Add earlier map to simplify data as core concept instead of challenge * Tidy code up a bit * Fix side quest order * Reduce examples and left shift for clarity * Fix typo in path to splitting-and-grouping * Fix samplesheet items to be more consistent * More consistent phrasing of first steps * Apply suggestions from code review Co-authored-by: Friederike Hanssen <friederike.hanssen@seqera.io> * Add reference to join documentation * Fix headers and indentation * Rename splitting and grouping file to be consistent with other filenames * Refine summary messages * Use bullet points instead of numbers for key concepts of splitting-and-grouping * splitting and grouping use before/after correctly * Splitting and grouping highlight lines * fixup * Fix formatting issue --------- Co-authored-by: Friederike Hanssen <friederike.hanssen@seqera.io>
Italian translation of 'Hello Nextflow' (nextflow-io#590) - Translates Hello Nextflow into Italian - Updates code blocks to the new structure - Small fixes --------- Signed-off-by: Marcel Ribeiro-Dantas <mribeirodantas@seqera.io> Co-authored-by: Giada Bellofatto <g.bellofatto2@studenti.unisa.it> Co-authored-by: MaraStanco <M.STANCO15@studenti.unisa.it> Co-authored-by: elisa270401 <e.dati@studenti.unisa.it> Co-authored-by: SaraPappacena <pappacenasara@gmail.com> Co-authored-by: Antonio8910 <a.barra25@studenti.unisa.it> Co-authored-by: annapaolagr <a.grimaldi122@studenti.unisa.it> Co-authored-by: Margherita <86382379+daisymut@users.noreply.github.com> Co-authored-by: ianniellomaria <m.ianniello23@studenti.unisa.it>
Docs: Deploy master as 'development' version (nextflow-io#574) * Docs: Deploy master as 'development' version * Rename to 0dev to sort to the bottom * Standardise GitHub action names and filenames * Update path filter
Minor updates to navigation and Side Quests index, orientation (nextf… …low-io#563) * Updated index and orientation pages for Side Quests * Updated navigation menu to follow home page listing * Fix capitalization in genomics docs + renumber the placeholder for the config section to avoid confusion * Rename Launch to Start on Home page to disambiguate starting a training vs launching the environment
Add NF4 RNAseq mini-course v0 (nextflow-io#526) * Domain-specific mini-course demonstrating how to apply learnings from Hello Nextflow to RNAseq processing * Includes a simple RNAseq processing pipeline that reuses the genome and read data from the deprecated `hands-on` training. * Implements the method described in https://www.bioinformatics.babraham.ac.uk/training/RNASeq_Course/Analysing%20RNA-Seq%20data%20Exercise.pdf --------- Co-authored-by: Ken Brewer <kenibrewer@users.noreply.github.com>
New multi-course structure for training materials (nextflow-io#486) Major refresh of the training materials * Pared down and streamlined the Hello Nextflow course (v2) * Spun out the genomics material into a separate mini-course, Nextflow for Genomics * Added stubs/placeholders for Nextflow Run and Side Quests * Consolidated the experimental and/or unfinished content into `other/` * Updated and streamlined the training index --------- Co-authored-by: Jonathan Manning <jonathan.manning@seqera.io> Co-authored-by: Rob Syme <rob.syme@gmail.com> Co-authored-by: Marcel Ribeiro-Dantas <marcel.ribeirodantas@seqera.io> Co-authored-by: Marcel Ribeiro-Dantas <mribeirodantas@seqera.io> Co-authored-by: Phil Ewels <phil.ewels@seqera.io>
Merge pull request nextflow-io#508 from ewels/fix-docs-release Fix docs release
Merge pull request nextflow-io#497 from ewels/master Add mike versioning
Merge pull request nextflow-io#131 from mribeirodantas/remove-eq-sign… …-process Equal sign for directives only in config files
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