Remove PCR duplicates using bwa and Picard
1 2 | map_with_bwa_and_remove_PCR_duplicates(idxbase, in1_fq, in2_fq, threads,
output_filename)
|
idxbase |
name of bwa index |
in1_fq |
left reads or 1 reads (of pair-end reads) fastq file |
in2_fq |
right or 2 reads (of pair-end reads) fastq file |
threads |
number of threads to run with (depends on server resources) |
output_filename |
output filename (after removing PCR duplicates) |
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