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hi folks i have to do the transcriptome analysis using illumina sequencing so could you please tell me ho to convert the sra file into fastQ formate
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You should think about moving your question somewhere else, as the topic is by no means related to your question... -
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The mentioned program is part of the SRA Toolkit and can be found here:
Help on how to use the fastq-dump can be found here:
Good luck!Comment
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Hi there. I have been using the SRA toolkit and have had no trouble using the fastq-dump tool but I have also been trying to get the SRA files into SFF format to use sff_extract for use with MIRA3 assembler. Unfortunately I can't get it to work and as a complete novice (both with bioinformatics and LINUX) working more or less alone on this I would really appreciate any help if anyone has used it. Any alternate approaches would also be appreciated for assebling and analysis of 454 EST data.
Thanks, seenstevoComment
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Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.07-01-2026, 11:43 AM
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I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...
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