Question: FASTA QC ON GROOMER DATA :
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gravatar for pinakin76
18 months ago by
pinakin760
pinakin760 wrote:

PLS COMMENT ON THE DATA
SHOULD IT BE CONSIDERED OR DISCARDED ? SOURCE : RNASeq : SRX273486 File: ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR837/SRR837506/SRR837506.fastq.gz

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rna-seq qc groomer galaxy • 445 views
ADD COMMENTlink modified 18 months ago • written 18 months ago by pinakin760
3
gravatar for Jennifer Hillman Jackson
18 months ago by
United States
Jennifer Hillman Jackson23k wrote:

Hello,

This is your decision, yet I can agree this represents a low quality, short sequence length sample.

Jen, Galaxy team

ADD COMMENTlink written 18 months ago by Jennifer Hillman Jackson23k
1
gravatar for pinakin76
18 months ago by
pinakin760
pinakin760 wrote:

Thanks a lot again Jennifer will the data yield significant results on NGS analysis and will it be valid or misleading?

ADD COMMENTlink written 18 months ago by pinakin760
1

one has to decide what can be done with data. Sometime it is the samples that will always provide low level of difficult sequencing. Can you afford to keep on repeating the sequencing or just not do it? It depends on what you decide.

ADD REPLYlink written 18 months ago by rob.costa123410

Quality scores are the metric used to report confidence in base calls. A quality score of 10 means that 1 out of 10 bases may be incorrect. This itself is a very high error rate. If the graph represents all of the sequences in the input file (not just a sample), most would not use it.

More here:

ADD REPLYlink modified 18 months ago • written 18 months ago by Jennifer Hillman Jackson23k
0
gravatar for pinakin76
18 months ago by
pinakin760
pinakin760 wrote:

thanks rob.costa1234

ADD COMMENTlink written 18 months ago by pinakin760
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