Question: Are There Any Tools/Scripts Available To Process Samplesheets?
1
gravatar for Rm
6.8 years ago by
Rm7.9k
Danville, PA
Rm7.9k wrote:

I am looking for any basic tools/scripts available to processing samplesheets from various sequening (Illumina) runs and database it to keep track of sample names, lane information, Projects they belong etc etc?

I am NOT looking for LIMS tools

thanks

mysql tool • 1.3k views
ADD COMMENTlink modified 6.8 years ago by Istvan Albert ♦♦ 81k • written 6.8 years ago by Rm7.9k
2
gravatar for Istvan Albert
6.8 years ago by
Istvan Albert ♦♦ 81k
University Park, USA
Istvan Albert ♦♦ 81k wrote:

The Illumina sample sheets are fairly simple but also very loose in their specifications.

The good news is that it is fairly simple to write scripts that operate on the file, but also that it is unlikely to have generic tools that could properly process every sheet.

You best option is to either write your own scripts or post requests for specific needs that you to have.

ADD COMMENTlink written 6.8 years ago by Istvan Albert ♦♦ 81k

Thanks @Istvan, I have a script which converts samplesheet csv file to import to mysql db. But was wondering if any tool already available and how our community deals with plenty of samplesheets.

ADD REPLYlink written 6.8 years ago by Rm7.9k
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