Hi, i am new to bioinformatics and would greatly appreciate any guidance as I'm largly going at this alone.
Essentially what I want to do is use MIRA3 to assemble some 454 EST data that I have downloaded from NCBI. It is in the full SRA format and I was planning on using the SRA toolkit (sff-dump) to convert it into SFF format before using sff_extract to create fastq and xml files for use in the main MIRA3 assembler.
Is this the best approach? I have tried using sff-dump but am told: my data is not supported while constructing formatter within short read archive module, and this is followed by my sra file directory. The sra toolkit seems to work in general as I have succesfully converted the sra files into fastq files.
Thanks in advance, seenstevo
Essentially what I want to do is use MIRA3 to assemble some 454 EST data that I have downloaded from NCBI. It is in the full SRA format and I was planning on using the SRA toolkit (sff-dump) to convert it into SFF format before using sff_extract to create fastq and xml files for use in the main MIRA3 assembler.
Is this the best approach? I have tried using sff-dump but am told: my data is not supported while constructing formatter within short read archive module, and this is followed by my sra file directory. The sra toolkit seems to work in general as I have succesfully converted the sra files into fastq files.
Thanks in advance, seenstevo
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