Question: sra data assembly
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gravatar for 1603.neha
21 months ago by
1603.neha70
1603.neha70 wrote:

hi i want to know tools to be used for SRA data assembly. i plant ot use data from ncbi sra.

assembly rna-seq • 785 views
ADD COMMENTlink modified 21 months ago • written 21 months ago by 1603.neha70
0
gravatar for Jennifer Hillman Jackson
21 months ago by
United States
Jennifer Hillman Jackson23k wrote:

Hello,

For RNA-seq assembly, see the tools under the group RNA-seq at Galaxy Main (http://usegalaxy.org). These do not create consensus sequence, but rather perform data reduction for expression analysis. Tutorial: https://wiki.galaxyproject.org/Learn/GalaxyNGS101#Reference-based_RNA-seq

A certain type of consensus can be generated with the tools under the group De Novo. Review the tools to see if it is a fit for your input datatype and goals.

For full consensus sequence assembly, see the tools under the category Assembly in the Galaxy Tool Shed (http://usegalaxy.org/toolshed). These majority of these tools are for use in a local or cloud Galaxy (https://wiki.galaxyproject.org/BigPicture/Choices).

How to use the underlying wrapped tools can be found in the help section per-tool, including links to 3rd party software.

Hopefully this helps, Jen, Galaxy team

ADD COMMENTlink written 21 months ago by Jennifer Hillman Jackson23k
0
gravatar for 1603.neha
21 months ago by
1603.neha70
1603.neha70 wrote:

thanks a lot galaxy team

ADD COMMENTlink written 21 months ago by 1603.neha70
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