Question: Reads for assembly
0
gravatar for glady
2.5 years ago by
glady260
glady260 wrote:

I want to experience myself, how do we assemble the raw read data of a genome obtained from sequencer. From where can I download the raw reads, for constructing assemble ?

assembly • 673 views
ADD COMMENTlink modified 6 weeks ago by Biostar ♦♦ 20 • written 2.5 years ago by glady260
1
gravatar for lakhujanivijay
2.5 years ago by
lakhujanivijay4.7k
India
lakhujanivijay4.7k wrote:

I want to experience myself, how do we assemble the raw read data of a genome obtained from sequencer.

This is a very vague question. An assembly really depends on couple of factors like :

type of sequence - genome, transcriptome etc.

what species/organism it is - eukaryote/ prokaryote

whether the reference is available or not - denovo or reference based

platform - Illumina , pacbio etc.

Please include as much as possible information so that we can help you out.

From where can I download the raw reads, for constructing assemble ?

you can learn about SRA(Sequence Read Archive). Check out this detailed link about the same.

ADD COMMENTlink modified 2.5 years ago • written 2.5 years ago by lakhujanivijay4.7k

I want to download reads for a bacterial genome, it can be of any sequencing platform doesn't matter. From where I can download reads for it ? Any databases or links ? And how can we judge whether we have to go forward with a denovo assembly or a reference assembly ?

ADD REPLYlink written 2.5 years ago by glady260
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