Hi everyone. I've searched everywhere but haven't quite found the solution to my problem so bare with me if I'm asking a simple question.
I just got back from 454 data that we generated using the Fluidigm access array. I am having difficulties parsing out the MIDs. I've converted the .sff files to fasta files and tried parsing out the MIDs with fastx tools. For some reason, the barcode splitter option is not working. I'm sure my syntax is correct so I think something is wrong with my fasta file. I know the keytags and adapters are still on my sequences. Is this the problem? I'm not sure what I should do. We are not big fans of Roche's software especially AVA so we are trying to find a different solution. Also, have people been successful using novoalign for mapping 454 data?
Any information is greatly appreciated!!!!! Thank you!
Ali
I just got back from 454 data that we generated using the Fluidigm access array. I am having difficulties parsing out the MIDs. I've converted the .sff files to fasta files and tried parsing out the MIDs with fastx tools. For some reason, the barcode splitter option is not working. I'm sure my syntax is correct so I think something is wrong with my fasta file. I know the keytags and adapters are still on my sequences. Is this the problem? I'm not sure what I should do. We are not big fans of Roche's software especially AVA so we are trying to find a different solution. Also, have people been successful using novoalign for mapping 454 data?
Any information is greatly appreciated!!!!! Thank you!
Ali
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