getPairedReads: Get the filenames of paired reads
In ge11232002/NGS: Next Generation Sequencing Data Analysis

Description Usage Arguments Details Value Author(s) Examples

Given the filenames of the first reads fastq files, get the filenames of the paired reads fastq if exist.

1	getPairedReads(reads1)

reads1

The filenames of the first reads.

The current supported file suffixes are "R1_001.fastq.gz", "R1.fastq.gz", "R1.fastq", "F3.csfasta" and "F3.csfasta". The corresponding mapping paired reads have suffixes of "R2_001.fastq.gz", "R2.fastq.gz", "R2.fastq", "F5-BC.csfasta" and "F5-RNA.csfasta".

If the paired reads exist, the filenames are returned. Otherwise, NULL is returned.

Ge Tan

  x <- c("nanocage_ACAGAT_carp_embryo_R1.fastq.gz",
         "nanocage_CACGAT_carp_hk_control_R1.fastq.gz",
         "nanocage_CACTGA_carp_hk_Tborreli1_R1.fastq.gz",
         "nanocage_CTGACG_carp_hk_Tborreli2_R1.fastq.gz")
  getPairedReads(x)