diff --git a/main.nf b/main.nf index 495a1fe1d5015cc46892218b17eb70c7dce0f4a6..3528a414cc64c2c3a5c0b106e3eef771c3c52dce 100644 --- a/main.nf +++ b/main.nf @@ -34,7 +34,7 @@ def helpMessage() { --save_reference [bool] Save reference genome to output folder. Default: False Alignments - --split_fastq [bool] Split fastq files in reads chunks to speed up computation. Default: None + --split_fastq [bool] Split fastq files in reads chunks to speed up computation. Default: false --fastq_chunks_size [int] Size of read chunks if split_fastq is true. Default: 20000000 --save_aligned_intermediates [bool] Save intermediates alignment files. Default: False --bwt2_opts_end2end [str] Options for bowtie2 end-to-end mappinf (first mapping step). See hic.config for default.