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Preview at https://biojulia.github.io/BioTutorials/28 |
cookbook/sequences.md
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| The SRR (sample run accession number) is the unique identifier within SRA | ||
| and corresponds to the specific sequencing run. | ||
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| In a later tutorial, we will discuss how to download this file in Julia using the SRR. |
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Is there any example code that can be shared on how to do this? Or I can show how this package can be used in a one line on the terminal here.
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https://github.com/BioJulia/BioServices.jl is the cannonical way.
But also, another useful addition to the cookbook would be showing how to call shell commands from julia
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| This cookbook will provide a series of "recipes" that will help get started quickly with BioJulia so you can doing some bioinformatics! | ||
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| We have tutorials for reading in files, performing alignments, and using tools such as BLAST, |
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Though another option would be to bring in FormatSpecimens.jl... maybe not for the very first one.
cookbook/sequences.md
Outdated
| The SRR (sample run accession number) is the unique identifier within SRA | ||
| and corresponds to the specific sequencing run. | ||
|
|
||
| In a later tutorial, we will discuss how to download this file in Julia using the SRR. |
There was a problem hiding this comment.
https://github.com/BioJulia/BioServices.jl is the cannonical way.
But also, another useful addition to the cookbook would be showing how to call shell commands from julia
|
Preview at https://biojulia.github.io/BioTutorials/28 |
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First cookbook tutorial that explains how to read in different file bioinformatics file types