Reg: same barcode sequence for all the five samples

[Geet]

Hello everyone

I am new to QIIME. 

I have paired end data (Illumina) of 5 samples with same barcode sequence and same primer sequence.

Is it possible that for all the sample having the same barcode sequence.

Can anyone please help me..

Thanks in advance

[Jose]

Hi,

if your 5 samples have the same barcode you will not be able to distinguish them in any way. So in practice the 5 samples will be considered as a single sample. Are you sure that is the case?

Jose

[Geet]

Hi Jose

Thanks a lot for your reply.

Yes I am given the paired end data of 5 samples and they are having the same barcode sequences and Primer sequences same. I am giving below:

Sample	Barcode	LinkerPrimerSequence
1	ACCAGCGACTAG	YATGGTGCCTGCCGTAGGAGT
2	ACCAGCGACTAG	YATGGTGCCTGCCGTAGGAGT
3	ACCAGCGACTAG	YATGGTGCCTGCCGTAGGAGT
4	ACCAGCGACTAG	YATGGTGCCTGCCGTAGGAGT
5	ACCAGCGACTAG	YATGGTGCCTGCCGTAGGAGT

[Jose]

Hi,

I am afraid there is no way then to distinguish between the samples. The barcodes are supposed to be unique for each sample, so at this point you basically have one sample and not five.

Jose

[Geet]

Thanks Jose for replying to my query.

Being new to qiime I thought that may be I am wrong, this is the reason I wrote my query.

Thanks a lot for clearing my doubts.

[Geet]

Hi Jose,

I had more doubt make_otu_network.py is used for network  formation betwenn different samples. what is exactly the purpose of this script.

Would you please help me.

Thanks,

Geet

[Jose]

Hi Geet,

the script make_otu_network.py builds a network of OTUs and samples, with nodes of the network representing either OTUs or samples, and edges representing connections between them (e.g. an OTU being present in a sample). This network can be visualized using Cytoscape, where you can also calculate various statistics. For a more complete description, please check this: http://qiime.org/scripts/make_otu_network.html

Thanks,
Jose

[Geet]

Hi Jose 

Thanks for your reply..