Hi,
I am trying to use PRINSEQ to examine the quality of an illumina dataset. It is in FASTQ format, 100bp SE. Strangely, when I try to open it and examine some basic stats, PRINSEQ wont open it...Says it is not in the expected FASTQ format. Even more strangely, PRINSEQ wont open the example FASTQ dataset provided with the release, and throws the same error...
Has anyone else has similar issues? I must be missing something. The format of the Fastq file seems normal to me and is as follows:
**forgot to add the details of the error after trying to run the prinseq-lite.pl script:
???
I am trying to use PRINSEQ to examine the quality of an illumina dataset. It is in FASTQ format, 100bp SE. Strangely, when I try to open it and examine some basic stats, PRINSEQ wont open it...Says it is not in the expected FASTQ format. Even more strangely, PRINSEQ wont open the example FASTQ dataset provided with the release, and throws the same error...
Has anyone else has similar issues? I must be missing something. The format of the Fastq file seems normal to me and is as follows:
@HWI-ST1085:16629UYACXX:8:1101:1064:1845 1:Y:0:
NTGANACCTGCACGGGCGAGGTGACGGGCGCCGGCGGCGGCGACGCGTGCGGCAGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTA
+
#0;;#4@@@@><@@@@@@??????????<????=<<:::7:::::::::::::::<<<<<<:<<:<<<:9::<===<<<<<==<=95::66:9:9<=<<2
@HWI-ST1085:16629UYACXX:8:1101:1185:1845 1:N:0:
NTACGGACAGCGTGCTGTCGCCGGGCCTGTGGGTGTCCCATGGTGGCAGAGATCGGAAAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTC
+
#1=DDFFFFHFHDIJJJIJJJJJJJJJJJIIJJGGIIJJIJHHHGGFFFDDDECDD@BBBABDBB@DDDDDDDDCCCDB>@@9<>BBDDDDBBDCCCBDB
@HWI-ST1085:16629UYACXX:8:1101:1231:1845 1:N:0:
NTGANACCTGCACGGGCGAGGTGACGGGCGCCGGCGGCGGCGACGCGTGCGGCAGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTA
+
#0;;#4@@@@><@@@@@@??????????<????=<<:::7:::::::::::::::<<<<<<:<<:<<<:9::<===<<<<<==<=95::66:9:9<=<<2
@HWI-ST1085:16629UYACXX:8:1101:1185:1845 1:N:0:
NTACGGACAGCGTGCTGTCGCCGGGCCTGTGGGTGTCCCATGGTGGCAGAGATCGGAAAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTC
+
#1=DDFFFFHFHDIJJJIJJJJJJJJJJJIIJJGGIIJJIJHHHGGFFFDDDECDD@BBBABDBB@DDDDDDDDCCCDB>@@9<>BBDDDDBBDCCCBDB
@HWI-ST1085:16629UYACXX:8:1101:1231:1845 1:N:0:
Cant find string terminator "'" anywhere before EOF at -e line 1
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