Adding tutorials

Author: JBris

.gitignore

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+.DS_Store
+.cache
+.idea
+serve
+nextflow
+work
+.nextflow*
+nf-training/results
+transcript-index
+.vscode

README.md

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+#!/bin/bash
+set -e
+set -u
+
+sample_id=${1}
+reads=${2}
+
+mkdir fastqc_${sample_id}_logs
+fastqc -o fastqc_${sample_id}_logs -f fastq -q ${reads}

bin/fastqc.sh

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+square = { num -> num * num }
+
+x = [ 1, 2, 3, 4 ].collect(square)
+println x
+
+printMap = { a, b -> println "$a with value $b" }
+values = [ "Yue" : "Wu", "Mark" : "Williams", "Sudha" : "Kumari" ]
+values.each(printMap)

closure.nf

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+params.compress = 'gzip'
+params.file2compress = "$baseDir/data/ggal/transcriptome.fa"
+
+process FOO {
+
+  input:
+  path file
+
+  script:
+  if( params.compress == 'gzip' )
+    """
+    gzip -c $file > ${file}.gz
+    """
+  else if( params.compress == 'bzip2' )
+    """
+    bzip2 -c $file > ${file}.bz2
+    """
+  else
+    throw new IllegalArgumentException("Unknown aligner $params.compress")
+}
+
+workflow {
+  FOO(params.file2compress)
+}