[BioC] writeFastq writing dashes instead of dots

[Thomas Rensch]

Hi everyone,

I am reading and writing fastq files and writeFastq just swaps dots ('.') for dashes ('-').

Is this the desired behaviour of writeFastq and if so why? Otherwise could someone better at R development than I modify this?

Example fastq:


@HWI-EAS149_3:1:1:0:1956:0:1:0
.A..................................
+
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@HWI-EAS149_3:1:1:0:173:0:1:0
.T..................................
+
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@HWI-EAS149_3:1:1:0:47:0:1:0
.T..................................
+
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB


Thanks a lot,
Thomas

--
Thomas Rensch
PhD Student - Paul Flicek Group
EMBL-EBI