Commit c455a945 authored by lrodrig1's avatar lrodrig1
Browse files

update nextflow.config with 5 samples

parent 3d7f911f
......@@ -9,7 +9,13 @@
// Global default params, used in configs
params {
//Files
fastq = [ "data/fastq_simple/SRR081254_{1,2}.fastq.gz", "data/fastq_simple/SRR078847_{1,2}.fastq.gz" ]
fastq = [ "data/fastq/SRR709972_{1,2}.fastq.gz",
"data/fastq/SRR070528_{1,2}.fastq.gz",
"data/fastq/SRR070819_{1,2}.fastq.gz",
"data/fastq/SRR764718_{1,2}.fastq.gz",
"data/fastq/SRR764689_{1,2}.fastq.gz"
]
generate_bwa_indexes = false
reference_fasta = "data/hs37d5.fa"
reference_fasta_indexs = [ "data/hs37d5.fa.{amb,ann,bwt,pac,sa,fai}" ]
......@@ -30,12 +36,12 @@ params {
merge_all_script = "templates/merge_all.sh"
//params
//threads_fastqc = 2
//threads_fastp = 12
//threads_bwa_mem = 24
//threads_bwa_mem = 1
//threads_samtools = 8
//threads_gridss = 8
threads_fastqc = 2
threads_fastp = 12
threads_bwa_mem = 24
threads_bwa_mem = 1
threads_samtools = 8
threads_gridss = 8
cut_right = true
cut_right_window_size = 5
cut_right_mean_quality = 24
......
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