Question: Downloading 16S Sequences From Rdp And Greengenes
0
gravatar for vijay
6.6 years ago by
vijay1.5k
Chennai
vijay1.5k wrote:

Dear all,

Please can someone let me know how I could get all the 16 rDNA sequences available in Greengenes and Ribosomal database project websites.

I tried downlaoding from the http://greengenes.lbl.gov/Download/Sequence_Data/Fasta_data_files/Reference_OTUs_for_Pipelines/ but I din't get the sequences.

Your responses are highly appreciated.

-Vijay

metagenomics • 5.7k views
ADD COMMENTlink written 6.6 years ago by vijay1.5k
2

You should really try harder.

ADD REPLYlink written 6.6 years ago by Martin A Hansen3.0k
2
gravatar for satanicodr
6.6 years ago by
satanicodr110
satanicodr110 wrote:

For the RDP. 1. Go to the website and click on "Browser": 2. Change the options if you want to include shorter sequences or low quality ones and click on "browse" 3. Click on "+" left to Bacteria if you want all the bacterial sequences, do the same for other groups if you are interested 4. Click on download and then check the options for formatting and then click your option under "Choose an alignment model for download" if you click on "Remove all gaps" the sequences will be unaligned

ADD COMMENTlink written 6.6 years ago by satanicodr110
1
gravatar for Istvan Albert
6.6 years ago by
Istvan Albert ♦♦ 80k
University Park, USA
Istvan Albert ♦♦ 80k wrote:

Go one level down and you can see the prealigned as well as the unaligned sequences:

http://greengenes.lbl.gov/Download/Sequence_Data/Fasta_data_files/

ADD COMMENTlink written 6.6 years ago by Istvan Albert ♦♦ 80k
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