Hello everyone,
I used to demultiplexe using bcl2fastq.pl provied by CASAVA.
I want to try new tools because I got some trouble at the demultiplexing step.
So I checked on google and I found several softs like TagGD, Flexbar, Sabre, deML etc. but all of them take a FASTQ file in input... And the only way I can have a FASTQ file is demultiplexing using bcl2fastq.pl plus this script removes the index sequence of all reads...
So how can I demultiplexe something which is already demultiplexed and where the index sequence are removed ?
I think the only thing I can do is to give an empty SampleSheet to CASAVA, then I suppose it will put all reads together as undetermined reads, but maybe there is a cleaner way to do ?
I used to demultiplexe using bcl2fastq.pl provied by CASAVA.
I want to try new tools because I got some trouble at the demultiplexing step.
So I checked on google and I found several softs like TagGD, Flexbar, Sabre, deML etc. but all of them take a FASTQ file in input... And the only way I can have a FASTQ file is demultiplexing using bcl2fastq.pl plus this script removes the index sequence of all reads...
So how can I demultiplexe something which is already demultiplexed and where the index sequence are removed ?
I think the only thing I can do is to give an empty SampleSheet to CASAVA, then I suppose it will put all reads together as undetermined reads, but maybe there is a cleaner way to do ?
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