Tweet
anyone knows about how to do that?
Thanks!
Thanks!
-
-
No need to do so. The libraries are already extracted by the machine, at least on the SOLiD 4 and SOLiD 3. -
really?I just got one csfasta and qual file including 8 libraries from the core facility. If so, I will ask them tomorrow.Comment
-
Yes, ask them. Let us know what they say. Since the SOLiD has separate runs for the barcode, the F3 and the F5/R3 then these should separate into three different files and into different samples. We get (and give to our customers) files that are named like:
run00165_Stemredo_BC_000738_StemRedo_05.csfasta
run00165_Stemredo_F5-BC_000738_StemRedo_05.csfasta
run00165_Stemredo_F3_000738_StemRedo_05.csfasta
run00165_Stemredo_BC_000739_StemRedo_06.csfasta
run00165_Stemredo_F5-BC_000739_StemRedo_06.csfasta
run00165_Stemredo_F3_000739_StemRedo_06.csfasta
Plus associated qual and stats files; e.g.,
run00165_Stemredo_BC_QV_000738_StemRedo_05.qual
run00165_Stemredo_BC.stats
Note that there are three .csfasta files per sample.
It is possible to merge all data from the samples into one file. But, at the risk of critiquing another core facility, why do so?Comment
-
I'm having the same problem. I have four barcoded samples, but only got one csfasta and qual files. Did the ppl got the solution for the problem from ABI?
Thx!Comment
-
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
-
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...
Comment