guillermo-carrasco

/*
Deinterleave FASQ files containing both reads from a paired-end read.
The script makes the following assumption:
    * FASTQ format (4 lines per read), and the two reads (fordward and reverse) in a row.

USAGE: :/deinterleave file.fastq  f.file.fastq r.file.fastq
RESULT: f.file.fastq r.file.fastq containing fordward and backward reads, respectively

Can deinterleave FASTQ files of any size, does not consume memory. The execution time is
I/O bounded.

guillermo-carrasco

diff -ru simNGS.orig/src/simlibrary.c simNGS/src/simlibrary.c
--- simNGS.orig/src/simlibrary.c  2013-05-13 17:45:17.000000000 +0200
+++ simNGS/src/simlibrary.c	2013-05-13 18:06:41.000000000 +0200
@@ -33,12 +33,13 @@
 #define QUOTE(A) Q_(A)
 #define DEFAULT_COV         0.055
 #define DEFAULT_OUT         "fasta"
+#define DEFAULT_UNIQUE      "not"
 #define DEFAULT_INSERT      400
 #define DEFAULT_NCYCLE      45