Dear all,
I just started working on an Ion Proton de novo genome sequencing project. Our service provider sent us the .fastq file, and, as I try to load it either onto Newbler or CLC Workbench (as somebody suggested me), both programs end up warning me about problems with the file.
CLC Genomics Workbench fails to import the file, warning me about an "unexpected end of file."
Newbler loads it, but, as I start assembling, it warns me about the presence of lots of sequences with long names, which renders them useless.
Only MIRA seems not to care about anything, and starts assembling.
I think the issue might be related to the quality data, since converting it to a simple .fasta file makes everything work very fine. Am I right? Have you already experienced such a problem?
-MikeT
I just started working on an Ion Proton de novo genome sequencing project. Our service provider sent us the .fastq file, and, as I try to load it either onto Newbler or CLC Workbench (as somebody suggested me), both programs end up warning me about problems with the file.
CLC Genomics Workbench fails to import the file, warning me about an "unexpected end of file."
Newbler loads it, but, as I start assembling, it warns me about the presence of lots of sequences with long names, which renders them useless.
Only MIRA seems not to care about anything, and starts assembling.
I think the issue might be related to the quality data, since converting it to a simple .fasta file makes everything work very fine. Am I right? Have you already experienced such a problem?
-MikeT
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